From 2678ac8f895c0a071d2ede04cda37e1e235a30b5 Mon Sep 17 00:00:00 2001 From: Dozgulbas Date: Thu, 29 May 2025 16:16:14 -0700 Subject: [PATCH 01/14] Relocated under the interface --- .../HidexAutomation/Arrays.xsd | 9 - ...HidexAutomation.InstrumentState.datasource | 10 - .../HidexAutomation/HidexSense.Automation.xsd | 11 - .../HidexAutomation/HidexSenseAutomation.wsdl | 169 --------- .../HidexAutomation/HidexSenseAutomation.xsd | 192 ---------- .../HidexAutomation/Reference.cs | 340 ------------------ .../HidexAutomation/Reference.svcmap | 36 -- .../HidexAutomation/configuration.svcinfo | 10 - .../HidexAutomation/configuration91.svcinfo | 231 ------------ .../HidexAutomation/service.wsdl | 170 --------- .../HidexAutomation/service.xsd | 42 --- .../hidex_interface}/.gitignore | 0 .../hidex_interface}/App.config | 0 .../hidex_interface}/GlobalSuppressions.cs | 0 .../hidex_interface}/HidexNode.cs | 0 .../hidex_interface}/HidexNode.csproj | 0 .../hidex_interface}/HidexNode.sln | 0 .../hidex_interface}/HidexRestServer.cs | 0 .../hidex_interface}/packages.config | 0 {hidex_node => src/hidex_interface}/utils.cs | 0 20 files changed, 1220 deletions(-) delete mode 100644 hidex_node/Connected Services/HidexAutomation/Arrays.xsd delete mode 100644 hidex_node/Connected Services/HidexAutomation/HidexNode.HidexAutomation.InstrumentState.datasource delete mode 100644 hidex_node/Connected Services/HidexAutomation/HidexSense.Automation.xsd delete mode 100644 hidex_node/Connected Services/HidexAutomation/HidexSenseAutomation.wsdl delete mode 100644 hidex_node/Connected Services/HidexAutomation/HidexSenseAutomation.xsd delete mode 100644 hidex_node/Connected Services/HidexAutomation/Reference.cs delete mode 100644 hidex_node/Connected Services/HidexAutomation/Reference.svcmap delete mode 100644 hidex_node/Connected Services/HidexAutomation/configuration.svcinfo delete mode 100644 hidex_node/Connected Services/HidexAutomation/configuration91.svcinfo delete mode 100644 hidex_node/Connected Services/HidexAutomation/service.wsdl delete mode 100644 hidex_node/Connected Services/HidexAutomation/service.xsd rename {hidex_node => src/hidex_interface}/.gitignore (100%) rename {hidex_node => src/hidex_interface}/App.config (100%) rename {hidex_node => src/hidex_interface}/GlobalSuppressions.cs (100%) rename {hidex_node => src/hidex_interface}/HidexNode.cs (100%) rename {hidex_node => src/hidex_interface}/HidexNode.csproj (100%) rename {hidex_node => src/hidex_interface}/HidexNode.sln (100%) rename {hidex_node => src/hidex_interface}/HidexRestServer.cs (100%) rename {hidex_node => src/hidex_interface}/packages.config (100%) rename {hidex_node => src/hidex_interface}/utils.cs (100%) diff --git a/hidex_node/Connected Services/HidexAutomation/Arrays.xsd b/hidex_node/Connected Services/HidexAutomation/Arrays.xsd deleted file mode 100644 index c7a5d70..0000000 --- a/hidex_node/Connected Services/HidexAutomation/Arrays.xsd +++ /dev/null @@ -1,9 +0,0 @@ - - - - - - - - - \ No newline at end of file diff --git a/hidex_node/Connected Services/HidexAutomation/HidexNode.HidexAutomation.InstrumentState.datasource b/hidex_node/Connected Services/HidexAutomation/HidexNode.HidexAutomation.InstrumentState.datasource deleted file mode 100644 index 97f620f..0000000 --- a/hidex_node/Connected Services/HidexAutomation/HidexNode.HidexAutomation.InstrumentState.datasource +++ /dev/null @@ -1,10 +0,0 @@ - - - - HidexNode.HidexAutomation.InstrumentState, Connected Services.HidexAutomation.Reference.cs.dll, Version=0.0.0.0, Culture=neutral, PublicKeyToken=null - \ No newline at end of file diff --git a/hidex_node/Connected Services/HidexAutomation/HidexSense.Automation.xsd b/hidex_node/Connected Services/HidexAutomation/HidexSense.Automation.xsd deleted file mode 100644 index e54557d..0000000 --- a/hidex_node/Connected Services/HidexAutomation/HidexSense.Automation.xsd +++ /dev/null @@ -1,11 +0,0 @@ - - - - - - - - - - - \ No newline at end of file diff --git a/hidex_node/Connected Services/HidexAutomation/HidexSenseAutomation.wsdl b/hidex_node/Connected Services/HidexAutomation/HidexSenseAutomation.wsdl deleted file mode 100644 index eb615dc..0000000 --- a/hidex_node/Connected Services/HidexAutomation/HidexSenseAutomation.wsdl +++ /dev/null @@ -1,169 +0,0 @@ - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - \ No newline at end of file diff --git a/hidex_node/Connected Services/HidexAutomation/HidexSenseAutomation.xsd b/hidex_node/Connected Services/HidexAutomation/HidexSenseAutomation.xsd deleted file mode 100644 index 3823ec2..0000000 --- a/hidex_node/Connected Services/HidexAutomation/HidexSenseAutomation.xsd +++ /dev/null @@ -1,192 +0,0 @@ - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - \ No newline at end of file diff --git a/hidex_node/Connected Services/HidexAutomation/Reference.cs b/hidex_node/Connected Services/HidexAutomation/Reference.cs deleted file mode 100644 index 124825b..0000000 --- a/hidex_node/Connected Services/HidexAutomation/Reference.cs +++ /dev/null @@ -1,340 +0,0 @@ -//------------------------------------------------------------------------------ -// -// This code was generated by a tool. -// Runtime Version:4.0.30319.42000 -// -// Changes to this file may cause incorrect behavior and will be lost if -// the code is regenerated. -// -//------------------------------------------------------------------------------ - -namespace HidexNode.HidexAutomation { - using System.Runtime.Serialization; - - - [System.CodeDom.Compiler.GeneratedCodeAttribute("System.Runtime.Serialization", "4.0.0.0")] - [System.Runtime.Serialization.DataContractAttribute(Name="InstrumentState", Namespace="http://schemas.datacontract.org/2004/07/HidexSense.Automation")] - public enum InstrumentState : int { - - [System.Runtime.Serialization.EnumMemberAttribute()] - Unknown = 0, - - [System.Runtime.Serialization.EnumMemberAttribute()] - Idle = 1, - - [System.Runtime.Serialization.EnumMemberAttribute()] - Busy = 2, - } - - [System.CodeDom.Compiler.GeneratedCodeAttribute("System.ServiceModel", "4.0.0.0")] - [System.ServiceModel.ServiceContractAttribute(Namespace="http://AurentiaSolutions/HidexSenseAutomation", ConfigurationName="HidexAutomation.IHidexSenseAutomationService", CallbackContract=typeof(HidexNode.HidexAutomation.IHidexSenseAutomationServiceCallback), SessionMode=System.ServiceModel.SessionMode.Required)] - public interface IHidexSenseAutomationService { - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + - "Assay", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + - "AssayResponse")] - bool CanRunAssay(string templateName); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + - "Assay", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + - "AssayResponse")] - System.Threading.Tasks.Task CanRunAssayAsync(string templateName); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + - "AssayWithSampleData", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + - "AssayWithSampleDataResponse")] - bool CanRunAssayWithSampleData(string templateName, string sampleDataCsvContent); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + - "AssayWithSampleData", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + - "AssayWithSampleDataResponse")] - System.Threading.Tasks.Task CanRunAssayWithSampleDataAsync(string templateName, string sampleDataCsvContent); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CloseP" + - "lateCarrier", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CloseP" + - "lateCarrierResponse")] - void ClosePlateCarrier(); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CloseP" + - "lateCarrier", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CloseP" + - "lateCarrierResponse")] - System.Threading.Tasks.Task ClosePlateCarrierAsync(); - - [System.ServiceModel.OperationContractAttribute(Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Connec" + - "t", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Connec" + - "tResponse")] - void Connect(bool allowSimulation); - - [System.ServiceModel.OperationContractAttribute(Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Connec" + - "t", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Connec" + - "tResponse")] - System.Threading.Tasks.Task ConnectAsync(bool allowSimulation); - - [System.ServiceModel.OperationContractAttribute(IsTerminating=true, IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Discon" + - "nect", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Discon" + - "nectResponse")] - void Disconnect(); - - [System.ServiceModel.OperationContractAttribute(IsTerminating=true, IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Discon" + - "nect", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Discon" + - "nectResponse")] - System.Threading.Tasks.Task DisconnectAsync(); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAss" + - "ays", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAss" + - "aysResponse")] - string[] GetAssays(); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAss" + - "ays", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAss" + - "aysResponse")] - System.Threading.Tasks.Task GetAssaysAsync(); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAut" + - "oExportPath", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAut" + - "oExportPathResponse")] - string GetAutoExportPath(); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAut" + - "oExportPath", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAut" + - "oExportPathResponse")] - System.Threading.Tasks.Task GetAutoExportPathAsync(); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetInt" + - "erfaceVersion", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetInt" + - "erfaceVersionResponse")] - string GetInterfaceVersion(); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetInt" + - "erfaceVersion", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetInt" + - "erfaceVersionResponse")] - System.Threading.Tasks.Task GetInterfaceVersionAsync(); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetSta" + - "te", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetSta" + - "teResponse")] - HidexNode.HidexAutomation.InstrumentState GetState(); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetSta" + - "te", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetSta" + - "teResponse")] - System.Threading.Tasks.Task GetStateAsync(); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/OpenPl" + - "ateCarrier", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/OpenPl" + - "ateCarrierResponse")] - void OpenPlateCarrier(); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/OpenPl" + - "ateCarrier", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/OpenPl" + - "ateCarrierResponse")] - System.Threading.Tasks.Task OpenPlateCarrierAsync(); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/SetAut" + - "oExportPath", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/SetAut" + - "oExportPathResponse")] - void SetAutoExportPath(string exportPath); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/SetAut" + - "oExportPath", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/SetAut" + - "oExportPathResponse")] - System.Threading.Tasks.Task SetAutoExportPathAsync(string exportPath); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + - "ssay", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + - "ssayResponse")] - void StartAssay(string templateName); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + - "ssay", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + - "ssayResponse")] - System.Threading.Tasks.Task StartAssayAsync(string templateName); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + - "ssayWithMetadata", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + - "ssayWithMetadataResponse")] - void StartAssayWithMetadata(string templateName, string resultTitle, string resultComment); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + - "ssayWithMetadata", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + - "ssayWithMetadataResponse")] - System.Threading.Tasks.Task StartAssayWithMetadataAsync(string templateName, string resultTitle, string resultComment); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + - "ssayWithSampleData", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + - "ssayWithSampleDataResponse")] - void StartAssayWithSampleData(string templateName, string resultTitle, string resultComment, string sampleDataCsvContent); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + - "ssayWithSampleData", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + - "ssayWithSampleDataResponse")] - System.Threading.Tasks.Task StartAssayWithSampleDataAsync(string templateName, string resultTitle, string resultComment, string sampleDataCsvContent); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StopAs" + - "say", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StopAs" + - "sayResponse")] - void StopAssay(); - - [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StopAs" + - "say", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StopAs" + - "sayResponse")] - System.Threading.Tasks.Task StopAssayAsync(); - } - - [System.CodeDom.Compiler.GeneratedCodeAttribute("System.ServiceModel", "4.0.0.0")] - public interface IHidexSenseAutomationServiceCallback { - - [System.ServiceModel.OperationContractAttribute(IsOneWay=true, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/OnStat" + - "eChanged")] - void OnStateChanged(); - } - - [System.CodeDom.Compiler.GeneratedCodeAttribute("System.ServiceModel", "4.0.0.0")] - public interface IHidexSenseAutomationServiceChannel : HidexNode.HidexAutomation.IHidexSenseAutomationService, System.ServiceModel.IClientChannel { - } - - [System.Diagnostics.DebuggerStepThroughAttribute()] - [System.CodeDom.Compiler.GeneratedCodeAttribute("System.ServiceModel", "4.0.0.0")] - public partial class HidexSenseAutomationServiceClient : System.ServiceModel.DuplexClientBase, HidexNode.HidexAutomation.IHidexSenseAutomationService { - - public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance) : - base(callbackInstance) { - } - - public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance, string endpointConfigurationName) : - base(callbackInstance, endpointConfigurationName) { - } - - public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance, string endpointConfigurationName, string remoteAddress) : - base(callbackInstance, endpointConfigurationName, remoteAddress) { - } - - public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance, string endpointConfigurationName, System.ServiceModel.EndpointAddress remoteAddress) : - base(callbackInstance, endpointConfigurationName, remoteAddress) { - } - - public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance, System.ServiceModel.Channels.Binding binding, System.ServiceModel.EndpointAddress remoteAddress) : - base(callbackInstance, binding, remoteAddress) { - } - - public bool CanRunAssay(string templateName) { - return base.Channel.CanRunAssay(templateName); - } - - public System.Threading.Tasks.Task CanRunAssayAsync(string templateName) { - return base.Channel.CanRunAssayAsync(templateName); - } - - public bool CanRunAssayWithSampleData(string templateName, string sampleDataCsvContent) { - return base.Channel.CanRunAssayWithSampleData(templateName, sampleDataCsvContent); - } - - public System.Threading.Tasks.Task CanRunAssayWithSampleDataAsync(string templateName, string sampleDataCsvContent) { - return base.Channel.CanRunAssayWithSampleDataAsync(templateName, sampleDataCsvContent); - } - - public void ClosePlateCarrier() { - base.Channel.ClosePlateCarrier(); - } - - public System.Threading.Tasks.Task ClosePlateCarrierAsync() { - return base.Channel.ClosePlateCarrierAsync(); - } - - public void Connect(bool allowSimulation) { - base.Channel.Connect(allowSimulation); - } - - public System.Threading.Tasks.Task ConnectAsync(bool allowSimulation) { - return base.Channel.ConnectAsync(allowSimulation); - } - - public void Disconnect() { - base.Channel.Disconnect(); - } - - public System.Threading.Tasks.Task DisconnectAsync() { - return base.Channel.DisconnectAsync(); - } - - public string[] GetAssays() { - return base.Channel.GetAssays(); - } - - public System.Threading.Tasks.Task GetAssaysAsync() { - return base.Channel.GetAssaysAsync(); - } - - public string GetAutoExportPath() { - return base.Channel.GetAutoExportPath(); - } - - public System.Threading.Tasks.Task GetAutoExportPathAsync() { - return base.Channel.GetAutoExportPathAsync(); - } - - public string GetInterfaceVersion() { - return base.Channel.GetInterfaceVersion(); - } - - public System.Threading.Tasks.Task GetInterfaceVersionAsync() { - return base.Channel.GetInterfaceVersionAsync(); - } - - public HidexNode.HidexAutomation.InstrumentState GetState() { - return base.Channel.GetState(); - } - - public System.Threading.Tasks.Task GetStateAsync() { - return base.Channel.GetStateAsync(); - } - - public void OpenPlateCarrier() { - base.Channel.OpenPlateCarrier(); - } - - public System.Threading.Tasks.Task OpenPlateCarrierAsync() { - return base.Channel.OpenPlateCarrierAsync(); - } - - public void SetAutoExportPath(string exportPath) { - base.Channel.SetAutoExportPath(exportPath); - } - - public System.Threading.Tasks.Task SetAutoExportPathAsync(string exportPath) { - return base.Channel.SetAutoExportPathAsync(exportPath); - } - - public void StartAssay(string templateName) { - base.Channel.StartAssay(templateName); - } - - public System.Threading.Tasks.Task StartAssayAsync(string templateName) { - return base.Channel.StartAssayAsync(templateName); - } - - public void StartAssayWithMetadata(string templateName, string resultTitle, string resultComment) { - base.Channel.StartAssayWithMetadata(templateName, resultTitle, resultComment); - } - - public System.Threading.Tasks.Task StartAssayWithMetadataAsync(string templateName, string resultTitle, string resultComment) { - return base.Channel.StartAssayWithMetadataAsync(templateName, resultTitle, resultComment); - } - - public void StartAssayWithSampleData(string templateName, string resultTitle, string resultComment, string sampleDataCsvContent) { - base.Channel.StartAssayWithSampleData(templateName, resultTitle, resultComment, sampleDataCsvContent); - } - - public System.Threading.Tasks.Task StartAssayWithSampleDataAsync(string templateName, string resultTitle, string resultComment, string sampleDataCsvContent) { - return base.Channel.StartAssayWithSampleDataAsync(templateName, resultTitle, resultComment, sampleDataCsvContent); - } - - public void StopAssay() { - base.Channel.StopAssay(); - } - - public System.Threading.Tasks.Task StopAssayAsync() { - return base.Channel.StopAssayAsync(); - } - } -} diff --git a/hidex_node/Connected Services/HidexAutomation/Reference.svcmap b/hidex_node/Connected Services/HidexAutomation/Reference.svcmap deleted file mode 100644 index 9758726..0000000 --- a/hidex_node/Connected Services/HidexAutomation/Reference.svcmap +++ /dev/null @@ -1,36 +0,0 @@ - - - - false - true - true - - false - false - false - - - true - Auto - true - true - - - - - - - - - - - - - - - - - - - - \ No newline at end of file diff --git a/hidex_node/Connected Services/HidexAutomation/configuration.svcinfo b/hidex_node/Connected Services/HidexAutomation/configuration.svcinfo deleted file mode 100644 index 96344f7..0000000 --- a/hidex_node/Connected Services/HidexAutomation/configuration.svcinfo +++ /dev/null @@ -1,10 +0,0 @@ - - - - - - - - - - \ No newline at end of file diff --git a/hidex_node/Connected Services/HidexAutomation/configuration91.svcinfo b/hidex_node/Connected Services/HidexAutomation/configuration91.svcinfo deleted file mode 100644 index 0966156..0000000 --- a/hidex_node/Connected Services/HidexAutomation/configuration91.svcinfo +++ /dev/null @@ -1,231 +0,0 @@ - - - - - - - CustomBinding_IHidexSenseAutomationService - - - - - - - - - - - - - - - System.ServiceModel.Configuration.ReliableSessionElement - - - 00:00:00.2000000 - - - True - - - 01:00:00 - - - 4 - - - 8 - - - 8 - - - True - - - Default - - - System.ServiceModel.Configuration.BinaryMessageEncodingElement - - - 64 - - - 16 - - - 2048 - - - System.ServiceModel.Configuration.XmlDictionaryReaderQuotasElement - - - 0 - - - 0 - - - 0 - - - 0 - - - 0 - - - None - - - System.ServiceModel.Configuration.NamedPipeTransportElement - - - False - - - 524288 - - - 65536 - - - 8192 - - - StrongWildcard - - - 00:00:30 - - - 65536 - - - 0 - - - 00:00:00.2000000 - - - 0 - - - Buffered - - - System.ServiceModel.Configuration.NamedPipeConnectionPoolSettingsElement - - - default - - - 00:02:00 - - - 10 - - - System.ServiceModel.Configuration.NamedPipeSettingsElement - - - System.ServiceModel.Configuration.ApplicationContainerSettingsElement - - - - - - -1 - - - - - - - - - net.pipe://localhost/HidexSenseAutomation/ - - - - - - customBinding - - - CustomBinding_IHidexSenseAutomationService - - - HidexAutomation.IHidexSenseAutomationService - - - System.ServiceModel.Configuration.AddressHeaderCollectionElement - - - <Header /> - - - System.ServiceModel.Configuration.IdentityElement - - - System.ServiceModel.Configuration.UserPrincipalNameElement - - - - - - System.ServiceModel.Configuration.ServicePrincipalNameElement - - - - - - System.ServiceModel.Configuration.DnsElement - - - - - - System.ServiceModel.Configuration.RsaElement - - - - - - System.ServiceModel.Configuration.CertificateElement - - - - - - System.ServiceModel.Configuration.CertificateReferenceElement - - - 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Python + with: + python-version: 3.9 + - uses: pre-commit/action@v3.0.1 + name: Run Pre-Commit Checks \ No newline at end of file From 8eb75dec760187b6b923561b02e4738b26f7ec4e Mon Sep 17 00:00:00 2001 From: Dozgulbas Date: Thu, 29 May 2025 17:03:03 -0700 Subject: [PATCH 05/14] Clean up & updates --- pyproject.toml | 36 ++++++++++++++++++++++++++++------- test/run_test.py | 20 ------------------- test/run_wei_server.sh | 34 --------------------------------- test/test_hidex_workcell.yaml | 21 -------------------- test/test_hidex_workflow.yaml | 29 ---------------------------- 5 files changed, 29 insertions(+), 111 deletions(-) delete mode 100755 test/run_test.py delete mode 100755 test/run_wei_server.sh delete mode 100644 test/test_hidex_workcell.yaml delete mode 100644 test/test_hidex_workflow.yaml diff --git a/pyproject.toml b/pyproject.toml index 012a015..13d39de 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -1,23 +1,34 @@ [project] name = "hidex_module" version = "1.0.0" -description = "WEI Module for controlling the Hidex Sense Platereader" -authors = [{name = "Ryan D. Lewis", email="ryan.lewis@anl.gov"}, {name="Tobias Ginsburg", email="tginsburg@anl.gov"}] -# TODO: Add additional dependencies here +description = "MADSci Module for controlling the Hidex Sense Platereader" +authors = [ + {name = "Doga Ozgulbas", email="dozgulbas@anl.gov"}, + {name = "Ryan D. Lewis", email="ryan.lewis@anl.gov"}, + {name = "Tobias Ginsburg", email = "tginsburg@anl.gov"}, +] dependencies = [ "fastapi>=0.103", "uvicorn>=0.14.0", - "ad_sdl.wei>=0.6.0", "pytest", "pythonnet", + "madsci.node_module>=0.2.1", + ] -requires-python = ">=3.8.1" +requires-python = ">=3.9.1" readme = "README.md" license = {text = "MIT"} [project.urls] homepage = "https://github.com/AD-SDL/hidex_module" +###################### +# Build Info + Tools # +###################### +[build-system] +requires = ["setuptools>=61", "wheel"] +build-backend = "setuptools.build_meta" + ##################### # Development Tools # ##################### @@ -52,7 +63,7 @@ exclude = [ ] # Same as Black. -line-length = 88 +line-length = 120 indent-width = 4 # Assume Python 3.8 @@ -81,7 +92,8 @@ select = [ # "RUF" ] ignore = [ - "E501" # Line too long + "E501", # Line too long + "B006", # Do not use mutable data structures for argument defaults ] # Allow fix for all enabled rules (when `--fix`) is provided. @@ -112,6 +124,9 @@ filterwarnings = [ "ignore::DeprecationWarning", "ignore::pottery.exceptions.InefficientAccessWarning", ] +markers = [ + "hardware: marks test as requiring hardware (deselect with '-m \"not hardware\"')", +] [tool.mypy] # https://mypy.readthedocs.io/en/stable/config_file.html#using-a-pyproject-toml @@ -123,3 +138,10 @@ plugins = ["pydantic.mypy"] strict = true disallow_untyped_defs = true implicit_reexport = true + +[dependency-groups] +dev = [ + "pre-commit>=4.2.0", + "ruff>=0.11.7", + "pytest", +] \ No newline at end of file diff --git a/test/run_test.py b/test/run_test.py deleted file mode 100755 index d150ba5..0000000 --- a/test/run_test.py +++ /dev/null @@ -1,20 +0,0 @@ -#!/usr/bin/env python3 - -from pathlib import Path - -from wei import ExperimentClient - - -def main(): - # The path to the Workflow definition yaml file - wf_path = Path("./test_hidex_workflow.yaml") - # This defines the Experiment object that will communicate with the server for workflows - exp = ExperimentClient("127.0.0.1", "8000", "Test_Hidex_Application") - # This initializes the connection to the server and the logs for this run of the program. - exp.register_exp() - # This runs the workflow and returns once the workflow is complete - exp.start_run(wf_path.resolve(), simulate=False, blocking=True) - - -if __name__ == "__main__": - main() diff --git a/test/run_wei_server.sh b/test/run_wei_server.sh deleted file mode 100755 index 591ebce..0000000 --- a/test/run_wei_server.sh +++ /dev/null @@ -1,34 +0,0 @@ -#!/bin/bash - -session="WEI" - -folder="$( cd -- "$(dirname "$0")" >/dev/null 2>&1 ; pwd -P )" - -tmux new-session -d -s $session -tmux set -g mouse on - -window=0 -tmux rename-window -t $session:$window 'redis' -tmux send-keys -t $session:$window 'cd ' $folder C-m -# Start the redis server, or ping if it's already up -if [ "$(redis-cli ping)" != "PONG" ]; then - tmux send-keys -t $session:$window 'redis-server' C-m -fi - -window=1 -tmux new-window -t $session:$window -n 'server' -tmux send-keys -t $session:$window 'cd ' $folder C-m -tmux send-keys -t $session:$window 'python3 -m wei.server --workcell ./test_hidex_workcell.yaml' C-m - -window=2 -tmux new-window -t $session:$window -n 'engine' -tmux send-keys -t $session:$window 'cd ' $folder C-m -# Uncomment the following for ROS support -# tmux send-keys -t $session:$window 'source ~/wei_ws/install/setup.bash' C-m -tmux send-keys -t $session:$window 'python3 -m wei.engine --workcell ./test_hidex_workcell.yaml' C-m - -window=3 -tmux new-window -t $session:$window -n 'test_application' -tmux send-keys -t $session:$window 'python3 run_test.py' - -tmux attach-session -t $session diff --git a/test/test_hidex_workcell.yaml b/test/test_hidex_workcell.yaml deleted file mode 100644 index 5fa444b..0000000 --- a/test/test_hidex_workcell.yaml +++ /dev/null @@ -1,21 +0,0 @@ -name: Hidex_Test_Workcell - -#Info about data processing and location of the workcell -config: - funcx_local_ep: "" - globus_local_ep: "" - globus_search_index: "" - globus_portal_ep: "" - globus_group: "" - workcell_origin_coordinates: [0, 0, 0, 0, 0, 0] - -#List of all components accessible in this workcell -modules: - - name: hidex - model: hidex_platereader - interface: wei_rest_node - config: - rest_node_address: "http://wendy.cels.anl.gov:2005" - workcell_coordinates: [0, 0, 0, 0, 0, 0] - -locations: {} diff --git a/test/test_hidex_workflow.yaml b/test/test_hidex_workflow.yaml deleted file mode 100644 index 26e7900..0000000 --- a/test/test_hidex_workflow.yaml +++ /dev/null @@ -1,29 +0,0 @@ -name: Test Hidex -metadata: - author: Doga Ozgulbas, Ryan D. Lewis - info: Test workflow for Hidex - version: 0.1 - -modules: - - name: hidex - -flowdef: - - name: Open Hidex - module: hidex - action: open - checks: null - comment: Open Hidex - - - name: Close Hidex - module: hidex - action: close - checks: null - comment: Close Hidex - - - name: Plate Assay - module: hidex - action: run_assay - args: - assay_name: "Absorbance" - checks: null - comment: Run Hidex Plate Assay From d24524d23e3e48957758ed2bf1a31b192981bcdd Mon Sep 17 00:00:00 2001 From: Dozgulbas Date: Thu, 29 May 2025 17:05:12 -0700 Subject: [PATCH 06/14] Pre-commit fixes --- .github/workflows/pre-commit.yaml | 2 +- .gitignore | 1 - CODE_OF_CONDUCT.md | 2 +- README.md | 2 +- pyproject.toml | 2 +- src/hidex_interface/App.config | 4 +-- src/hidex_interface/HidexNode.cs | 2 +- src/hidex_interface/HidexNode.csproj | 2 +- src/hidex_interface/packages.config | 2 +- src/hidex_rest_node.py | 53 ++++++++++++++-------------- 10 files changed, 35 insertions(+), 37 deletions(-) diff --git a/.github/workflows/pre-commit.yaml b/.github/workflows/pre-commit.yaml index 3e3baa2..f01c862 100644 --- a/.github/workflows/pre-commit.yaml +++ b/.github/workflows/pre-commit.yaml @@ -17,4 +17,4 @@ jobs: with: python-version: 3.9 - uses: pre-commit/action@v3.0.1 - name: Run Pre-Commit Checks \ No newline at end of file + name: Run Pre-Commit Checks diff --git a/.gitignore b/.gitignore index c3d8e0a..8cc47e1 100644 --- a/.gitignore +++ b/.gitignore @@ -559,4 +559,3 @@ cython_debug/ # and can be added to the global gitignore or merged into this file. For a more nuclear # option (not recommended) you can uncomment the following to ignore the entire idea folder. #.idea/ - diff --git a/CODE_OF_CONDUCT.md b/CODE_OF_CONDUCT.md index 5f3f6b1..bce6070 100644 --- a/CODE_OF_CONDUCT.md +++ b/CODE_OF_CONDUCT.md @@ -125,4 +125,4 @@ enforcement ladder](https://github.com/mozilla/diversity). For answers to common questions about this code of conduct, see the FAQ at https://www.contributor-covenant.org/faq. Translations are available at -https://www.contributor-covenant.org/translations. \ No newline at end of file +https://www.contributor-covenant.org/translations. diff --git a/README.md b/README.md index 84816c0..4d61614 100644 --- a/README.md +++ b/README.md @@ -12,4 +12,4 @@ netsh http add urlacl url=http://+:2005/ user= listen=yes delegate=yes Replace `2005` with the port you intend to use, if it differs from the default, and `` with the username that will be running the server (you may need to use the form `DOMAIN/USER`) -To interface with the module from another device, you'll need to [open up the port](https://www.windowscentral.com/how-open-port-windows-firewall) you intend to run the module's server on (2005 by default). +To interface with the module from another device, you'll need to [open up the port](https://www.windowscentral.com/how-open-port-windows-firewall) you intend to run the module's server on (2005 by default). diff --git a/pyproject.toml b/pyproject.toml index 13d39de..78fc6a5 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -144,4 +144,4 @@ dev = [ "pre-commit>=4.2.0", "ruff>=0.11.7", "pytest", -] \ No newline at end of file +] diff --git a/src/hidex_interface/App.config b/src/hidex_interface/App.config index 5575884..48318db 100644 --- a/src/hidex_interface/App.config +++ b/src/hidex_interface/App.config @@ -1,6 +1,6 @@  - + @@ -29,4 +29,4 @@ - \ No newline at end of file + diff --git a/src/hidex_interface/HidexNode.cs b/src/hidex_interface/HidexNode.cs index af23a49..f0f5dc5 100644 --- a/src/hidex_interface/HidexNode.cs +++ b/src/hidex_interface/HidexNode.cs @@ -11,4 +11,4 @@ public void OnStateChanged() Console.WriteLine("Initialized!"); } } -} \ No newline at end of file +} diff --git a/src/hidex_interface/HidexNode.csproj b/src/hidex_interface/HidexNode.csproj index 6754fb8..c047216 100644 --- a/src/hidex_interface/HidexNode.csproj +++ b/src/hidex_interface/HidexNode.csproj @@ -266,4 +266,4 @@ - \ No newline at end of file + diff --git a/src/hidex_interface/packages.config b/src/hidex_interface/packages.config index 913d797..0589857 100644 --- a/src/hidex_interface/packages.config +++ b/src/hidex_interface/packages.config @@ -37,4 +37,4 @@ - \ No newline at end of file + diff --git a/src/hidex_rest_node.py b/src/hidex_rest_node.py index 11aaf6d..93e2fdd 100644 --- a/src/hidex_rest_node.py +++ b/src/hidex_rest_node.py @@ -1,35 +1,29 @@ - - """ REST-based node that interfaces with WEI and provides various fake actions for testing purposes """ + import clr -clr.AddReference("C:\\Users\\rpl\\\source\\repos\\hidex_module\\hidex_node\\bin\\Debug\\HidexNode.dll") -import System.ServiceModel as SM -import System.ServiceModel.Channels as SMC -import HidexNode.HidexAutomation as HA -import System -import HidexNode as HN -import time + +clr.AddReference("C:\\Users\\rpl\\\\source\\repos\\hidex_module\\src\\hidex_interface\\bin\\Debug\\HidexNode.dll") import glob import os - - +import time from typing import Annotated -from fastapi import UploadFile +import HidexNode as HN +import HidexNode.HidexAutomation as HA +import System +import System.ServiceModel as SM +import System.ServiceModel.Channels as SMC from fastapi.datastructures import State from wei.modules.rest_module import RESTModule from wei.types import StepFileResponse, StepResponse, StepStatus -from wei.types.step_types import StepSucceeded from wei.types.module_types import ( LocalFileModuleActionResult, - Location, ModuleState, - ValueModuleActionResult, ModuleStatus, ) -from wei.types.step_types import ActionRequest +from wei.types.step_types import ActionRequest, StepSucceeded # * Test predefined action functions @@ -50,8 +44,6 @@ ) - - @hidex_rest_node.startup() def test_node_startup(state: State): """Initializes the module""" @@ -60,7 +52,11 @@ def test_node_startup(state: State): binding.Elements.Add(sbe) binding.Elements.Add(SMC.BinaryMessageEncodingBindingElement()) binding.Elements.Add(SMC.NamedPipeTransportBindingElement()) - t = HA.HidexSenseAutomationServiceClient(SM.InstanceContext(HN.Callback_Wrapper()), binding, SM.EndpointAddress(System.Uri("net.pipe://localhost/HidexSenseAutomation/"))) + t = HA.HidexSenseAutomationServiceClient( + SM.InstanceContext(HN.Callback_Wrapper()), + binding, + SM.EndpointAddress(System.Uri("net.pipe://localhost/HidexSenseAutomation/")), + ) t.Connect(False) c = t.GetState() print(t.GetState() == c) @@ -82,8 +78,6 @@ def state_handler(state: State) -> ModuleState: return ModuleState(status=state.status) - - @hidex_rest_node.action() def open( state: State, @@ -94,6 +88,7 @@ def open( time.sleep(1) return StepResponse.step_succeeded() + @hidex_rest_node.action() def close( state: State, @@ -105,18 +100,21 @@ def close( return StepResponse.step_succeeded() - @hidex_rest_node.action( name="run_assay", results=[ LocalFileModuleActionResult(label="assay_result", description="result file from the assay"), ], ) -def run_assay(state: State, action: ActionRequest, - assay_name: Annotated[str, "assay to run"], wait_for_result: Annotated[bool, "Whether we should wait for the results of the assay before returning"] = True) -> StepFileResponse: +def run_assay( + state: State, + action: ActionRequest, + assay_name: Annotated[str, "assay to run"], + wait_for_result: Annotated[bool, "Whether we should wait for the results of the assay before returning"] = True, +) -> StepFileResponse: """runs assay on the current sample""" - list_of_files = glob.glob(state.output_path +'\\*') # * means all if need specific format then *.csv + list_of_files = glob.glob(state.output_path + "\\*") # * means all if need specific format then *.csv latest_file = max(list_of_files, key=os.path.getctime) prev_file = latest_file print(latest_file) @@ -126,7 +124,7 @@ def run_assay(state: State, action: ActionRequest, pass if bool(wait_for_result) and not state.cancelled: while latest_file == prev_file: - list_of_files = glob.glob(state.output_path +'\\*') # * means all if need specific format then *.csv + list_of_files = glob.glob(state.output_path + "\\*") # * means all if need specific format then *.csv latest_file = max(list_of_files, key=os.path.getctime) time.sleep(0.5) return StepFileResponse( @@ -137,12 +135,14 @@ def run_assay(state: State, action: ActionRequest, state.cancelled = False return StepSucceeded() + @hidex_rest_node.cancel() def cancel(state: State): state.client.StopAssay() state.cancelled = True state.status = ModuleStatus.IDLE + @hidex_rest_node.shutdown() def shutdown(state: State): state.client.Disconnect() @@ -150,4 +150,3 @@ def shutdown(state: State): if __name__ == "__main__": hidex_rest_node.start() - From f9d5c3bc83281aa5c2c218ee927da7f9e60b00ad Mon Sep 17 00:00:00 2001 From: Dozgulbas Date: Thu, 29 May 2025 17:24:23 -0700 Subject: [PATCH 07/14] Working on MADSci updates --- src/hidex_rest_node.py | 101 +++++++++++++++++++++++++++++++++-------- 1 file changed, 81 insertions(+), 20 deletions(-) diff --git a/src/hidex_rest_node.py b/src/hidex_rest_node.py index 93e2fdd..fd9c939 100644 --- a/src/hidex_rest_node.py +++ b/src/hidex_rest_node.py @@ -8,7 +8,8 @@ import glob import os import time -from typing import Annotated +from typing import Optional, Union +from typing_extensions import Annotated import HidexNode as HN import HidexNode.HidexAutomation as HA @@ -16,6 +17,17 @@ import System.ServiceModel as SM import System.ServiceModel.Channels as SMC from fastapi.datastructures import State + + +from madsci.client.resource_client import ResourceClient +from madsci.common.types.action_types import ActionFailed, ActionSucceeded +from madsci.common.types.admin_command_types import AdminCommandResponse +from madsci.common.types.auth_types import OwnershipInfo +from madsci.common.types.location_types import LocationArgument +from madsci.common.types.node_types import RestNodeConfig +from madsci.node_module.helpers import action +from madsci.node_module.rest_node_module import RestNode + from wei.modules.rest_module import RESTModule from wei.types import StepFileResponse, StepResponse, StepStatus from wei.types.module_types import ( @@ -25,9 +37,75 @@ ) from wei.types.step_types import ActionRequest, StepSucceeded -# * Test predefined action functions - +class HidexNodeConfig(RestNodeConfig): + """Configuration for the Hidex REST node""" + + output_path: Optional[str] = "C:\\Users\\rpl\\Desktop\\results" + +class HidexNode(RestNode): + """Hidex Node class for managing the Hidex plate reader""" + hidex_interface: HA.HidexSenseAutomationServiceClient = None + config_model = HidexNodeConfig + + def startup_handler(self) -> None: + """Called to (re)initialize the node. Should be used to open connections to devices or initialize any other resources.""" + try: + if self.config.resource_server_url: + self.resource_client = ResourceClient(self.config.resource_server_url) + self.resource_owner = OwnershipInfo(node_id=self.node_definition.node_id) + else: + self.resource_client = None + self.logger.log("Node initializing...") + + sbe = SMC.ReliableSessionBindingElement() + binding = SMC.CustomBinding() + binding.Elements.Add(sbe) + binding.Elements.Add(SMC.BinaryMessageEncodingBindingElement()) + binding.Elements.Add(SMC.NamedPipeTransportBindingElement()) + self.hidex_interface = HA.HidexSenseAutomationServiceClient( + SM.InstanceContext(HN.Callback_Wrapper()), + binding, + SM.EndpointAddress(System.Uri("net.pipe://localhost/HidexSenseAutomation/")), + ) + self.hidex_interface.Connect(False) + state = self.hidex_interface.GetState() + print(self.hidex_interface.GetState() == state) + while self.hidex_interface.GetState() == state: + print(self.hidex_interface.GetState()) + time.sleep(0.5) + print(self.hidex_interface.GetState()) + self.cancelled = False + + except Exception as err: + self.logger.log_error(f"Error starting the Hidex Node: {err}") + self.startup_has_run = False + else: + self.startup_has_run = True + self.logger.log("Hidex node initialized!") + + def state_handler(self) -> None: + """Handles the state of the Hidex node""" + if not self.hidex_interface: + self.logger.log_error("Hidex interface is not initialized") + return + + if self.hidex_interface.GetState() == HA.InstrumentState.Idle: + self.node_state = { + "hidex_status_code": "READY", + } + elif self.hidex_interface.GetState() == HA.InstrumentState.Busy: + self.node_state = { + "hidex_status_code": "BUSY", + } + self.logger.info("BUSY") + else: + self.node_state = { + "hidex_status_code": "UNKNOWN", + } + self.logger.info("UNKNOWN") + +#_#_#_OLD_CODE_#_#_# hidex_rest_node = RESTModule( name="hidex_node", description="A module to control the Hidex plate reader", @@ -36,12 +114,6 @@ model="Hidex", actions=[], ) -hidex_rest_node.arg_parser.add_argument( - "--output_path", - type=str, - help="The starting amount of foo", - default="C:\\Users\\rpl\\Desktop\\results", -) @hidex_rest_node.startup() @@ -67,17 +139,6 @@ def test_node_startup(state: State): state.client = t state.cancelled = False - -@hidex_rest_node.state_handler() -def state_handler(state: State) -> ModuleState: - """Handles the state of the module""" - if state.client.GetState() == HA.InstrumentState.Idle: - state.status = ModuleStatus.IDLE - elif state.client.GetState() == HA.InstrumentState.Busy: - state.status = ModuleStatus.BUSY - return ModuleState(status=state.status) - - @hidex_rest_node.action() def open( state: State, From 7373da33b832681b523534bf41ea43cceb1c394c Mon Sep 17 00:00:00 2001 From: Dozgulbas Date: Fri, 30 May 2025 13:11:27 -0700 Subject: [PATCH 08/14] First version of MADSci node --- src/hidex_rest_node.py | 216 +++++++++++++++++------------------------ 1 file changed, 89 insertions(+), 127 deletions(-) diff --git a/src/hidex_rest_node.py b/src/hidex_rest_node.py index fd9c939..4e5ca96 100644 --- a/src/hidex_rest_node.py +++ b/src/hidex_rest_node.py @@ -2,40 +2,28 @@ REST-based node that interfaces with WEI and provides various fake actions for testing purposes """ -import clr - -clr.AddReference("C:\\Users\\rpl\\\\source\\repos\\hidex_module\\src\\hidex_interface\\bin\\Debug\\HidexNode.dll") import glob import os import time -from typing import Optional, Union -from typing_extensions import Annotated - -import HidexNode as HN -import HidexNode.HidexAutomation as HA -import System -import System.ServiceModel as SM -import System.ServiceModel.Channels as SMC -from fastapi.datastructures import State - +from typing import Optional +import clr from madsci.client.resource_client import ResourceClient from madsci.common.types.action_types import ActionFailed, ActionSucceeded from madsci.common.types.admin_command_types import AdminCommandResponse from madsci.common.types.auth_types import OwnershipInfo -from madsci.common.types.location_types import LocationArgument from madsci.common.types.node_types import RestNodeConfig from madsci.node_module.helpers import action from madsci.node_module.rest_node_module import RestNode +from typing_extensions import Annotated -from wei.modules.rest_module import RESTModule -from wei.types import StepFileResponse, StepResponse, StepStatus -from wei.types.module_types import ( - LocalFileModuleActionResult, - ModuleState, - ModuleStatus, -) -from wei.types.step_types import ActionRequest, StepSucceeded +clr.AddReference("C:\\Users\\rpl\\\\source\\repos\\hidex_module\\src\\hidex_interface\\bin\\Debug\\HidexNode.dll") +# ruff: noqa: E402 +import HidexNode as HN +import HidexNode.HidexAutomation as HA +import System +import System.ServiceModel as SM +import System.ServiceModel.Channels as SMC class HidexNodeConfig(RestNodeConfig): @@ -43,14 +31,16 @@ class HidexNodeConfig(RestNodeConfig): output_path: Optional[str] = "C:\\Users\\rpl\\Desktop\\results" + class HidexNode(RestNode): """Hidex Node class for managing the Hidex plate reader""" + hidex_interface: HA.HidexSenseAutomationServiceClient = None config_model = HidexNodeConfig def startup_handler(self) -> None: """Called to (re)initialize the node. Should be used to open connections to devices or initialize any other resources.""" - try: + try: if self.config.resource_server_url: self.resource_client = ResourceClient(self.config.resource_server_url) self.resource_owner = OwnershipInfo(node_id=self.node_definition.node_id) @@ -84,6 +74,18 @@ def startup_handler(self) -> None: self.startup_has_run = True self.logger.log("Hidex node initialized!") + def shutdown_handler(self): + """Called to shutdown the node. Should be used to close connections to devices or release any other resources.""" + try: + self.logger.log("Shutting down") + self.hidex_interface.Disconnect() + self.shutdown_has_run = True + del self.ur_interface + self.hidex_interface = None + self.logger.log("Hidex node shutdown successfully!") + except Exception as err: + self.logger.log_error(f"Error shutting down the Hidex Node: {err}") + def state_handler(self) -> None: """Handles the state of the Hidex node""" if not self.hidex_interface: @@ -104,110 +106,70 @@ def state_handler(self) -> None: "hidex_status_code": "UNKNOWN", } self.logger.info("UNKNOWN") - -#_#_#_OLD_CODE_#_#_# -hidex_rest_node = RESTModule( - name="hidex_node", - description="A module to control the Hidex plate reader", - version="1.0.0", - resource_pools=[], - model="Hidex", - actions=[], -) - - -@hidex_rest_node.startup() -def test_node_startup(state: State): - """Initializes the module""" - sbe = SMC.ReliableSessionBindingElement() - binding = SMC.CustomBinding() - binding.Elements.Add(sbe) - binding.Elements.Add(SMC.BinaryMessageEncodingBindingElement()) - binding.Elements.Add(SMC.NamedPipeTransportBindingElement()) - t = HA.HidexSenseAutomationServiceClient( - SM.InstanceContext(HN.Callback_Wrapper()), - binding, - SM.EndpointAddress(System.Uri("net.pipe://localhost/HidexSenseAutomation/")), - ) - t.Connect(False) - c = t.GetState() - print(t.GetState() == c) - while t.GetState() == c: - print(t.GetState()) - time.sleep(0.5) - print(t.GetState()) - state.client = t - state.cancelled = False - -@hidex_rest_node.action() -def open( - state: State, - action: ActionRequest, -) -> StepResponse: - """opens plate carrier""" - state.client.OpenPlateCarrier() - time.sleep(1) - return StepResponse.step_succeeded() - - -@hidex_rest_node.action() -def close( - state: State, - action: ActionRequest, -) -> StepResponse: - """closes plate carrier""" - state.client.ClosePlateCarrier() - time.sleep(1) - return StepResponse.step_succeeded() - - -@hidex_rest_node.action( - name="run_assay", - results=[ - LocalFileModuleActionResult(label="assay_result", description="result file from the assay"), - ], -) -def run_assay( - state: State, - action: ActionRequest, - assay_name: Annotated[str, "assay to run"], - wait_for_result: Annotated[bool, "Whether we should wait for the results of the assay before returning"] = True, -) -> StepFileResponse: - """runs assay on the current sample""" - - list_of_files = glob.glob(state.output_path + "\\*") # * means all if need specific format then *.csv - latest_file = max(list_of_files, key=os.path.getctime) - prev_file = latest_file - print(latest_file) - state.client.SetAutoExportPath(state.output_path) - state.client.StartAssay(assay_name) - while state.client.GetState() == HA.InstrumentState.Busy: - pass - if bool(wait_for_result) and not state.cancelled: - while latest_file == prev_file: - list_of_files = glob.glob(state.output_path + "\\*") # * means all if need specific format then *.csv - latest_file = max(list_of_files, key=os.path.getctime) - time.sleep(0.5) - return StepFileResponse( - StepStatus.SUCCEEDED, - files={"assay_result": latest_file}, - ) - else: - state.cancelled = False - return StepSucceeded() - - -@hidex_rest_node.cancel() -def cancel(state: State): - state.client.StopAssay() - state.cancelled = True - state.status = ModuleStatus.IDLE - - -@hidex_rest_node.shutdown() -def shutdown(state: State): - state.client.Disconnect() + + @action(name="open", description="opens plate carrier") + def open(self): + """Opens the plate carrier""" + try: + self.hidex_interface.OpenPlateCarrier() + time.sleep(1) + except Exception as e: + self.logger.log_error(f"Error opening plate carrier: {e}") + return ActionFailed(errors=e) + return ActionSucceeded() + + @action(name="close", description="closes plate carrier") + def close(self): + """Closes the plate carrier""" + try: + self.hidex_interface.ClosePlateCarrier() + time.sleep(1) + except Exception as e: + self.logger.log_error(f"Error closing plate carrier: {e}") + return ActionFailed(errors=e) + return ActionSucceeded() + + @action(name="run_assay", description="runs assay on the current sample") + def run_assay( + self, + assay_name: Annotated[str, "assay to run"], + wait_for_result: Annotated[bool, "Whether we should wait for the results of the assay before returning"] = True, + ): + """Runs assay on the current sample""" + + list_of_files = glob.glob(self.config.output_path + "\\*") # * means all if need specific format then *.csv + latest_file = max(list_of_files, key=os.path.getctime) + prev_file = latest_file + self.logger.log_info(latest_file) + self.hidex_interface.SetAutoExportPath(self.config.output_path) + self.hidex_interface.StartAssay(assay_name) + while self.hidex_interface.GetState() == HA.InstrumentState.Busy: + pass + if bool(wait_for_result) and not self.cancelled: + while latest_file == prev_file: + list_of_files = glob.glob( + self.config.output_path + "\\*" + ) # * means all if need specific format then *.csv + latest_file = max(list_of_files, key=os.path.getctime) + time.sleep(0.5) + return ActionSucceeded(files={"assay_result": latest_file}) + else: + self.cancelled = False + return ActionSucceeded() + + def cancel(self) -> AdminCommandResponse: + """Cancels the current assay""" + try: + self.hidex_interface.StopAssay() + self.cancelled = True + return AdminCommandResponse( + success=True, + ) + except Exception as e: + self.logger.log_error(f"Error cancelling assay: {e}") + return AdminCommandResponse(success=False, errors=[e]) if __name__ == "__main__": - hidex_rest_node.start() + hidex_node = HidexNode() + hidex_node.start_node() From bbe2076d89306638dcb26e90d88e284d98a14b10 Mon Sep 17 00:00:00 2001 From: Dozgulbas Date: Fri, 30 May 2025 13:16:14 -0700 Subject: [PATCH 09/14] Added placeholder tests --- definitions/hidex.node.yaml | 13 +++++++++++++ tests/node_tests.ipynb | 39 +++++++++++++++++++++++++++++++++++++ 2 files changed, 52 insertions(+) create mode 100644 definitions/hidex.node.yaml diff --git a/definitions/hidex.node.yaml b/definitions/hidex.node.yaml new file mode 100644 index 0000000..ca8280f --- /dev/null +++ b/definitions/hidex.node.yaml @@ -0,0 +1,13 @@ +node_name: hidex +node_id: 01JWHD6HPNXMCKNHZK53VYVNQH +node_url: null +node_description: A rest node for Hidex Module +node_type: device +module_name: hidex_module +module_version: 0.0.1 +capabilities: null +commands: {} +is_template: false +config_defaults: + host: localhost + port: 3022 diff --git a/tests/node_tests.ipynb b/tests/node_tests.ipynb index e69de29..5f52a9b 100644 --- a/tests/node_tests.ipynb +++ b/tests/node_tests.ipynb @@ -0,0 +1,39 @@ +{ + "cells": [ + { + "cell_type": "markdown", + "id": "0", + "metadata": {}, + "source": [ + "## Test the Hidex Node " + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "1", + "metadata": {}, + "outputs": [], + "source": [ + "from madsci.client.node.rest_node_client import RestNodeClient\n", + "from madsci.common.types.action_types import ActionRequest\n", + "from madsci.common.types.location_types import LocationArgument\n", + "\n", + "client = RestNodeClient(url=\"http://localhost:3022\")" + ] + } + ], + "metadata": { + "kernelspec": { + "display_name": ".venv", + "language": "python", + "name": "python3" + }, + "language_info": { + "name": "python", + "version": "3.12.9" + } + }, + "nbformat": 4, + "nbformat_minor": 5 +} From 0378074783797ad2057945a24ca5cf0c466cbf88 Mon Sep 17 00:00:00 2001 From: "Ryan D. Lewis" Date: Wed, 5 Nov 2025 17:57:26 -0600 Subject: [PATCH 10/14] WIP: update to MADSci v0.5.0 (still need resources) --- .pre-commit-config.yaml | 6 +- pdm.lock | 1797 +++++++++++++++++++++------------------ pyproject.toml | 12 +- src/hidex_rest_node.py | 99 +-- tests/node_tests.ipynb | 2 - 5 files changed, 1026 insertions(+), 890 deletions(-) diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index 8153ae3..1a17289 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -1,6 +1,6 @@ repos: - repo: https://github.com/pre-commit/pre-commit-hooks - rev: v4.6.0 + rev: v6.0.0 hooks: - id: check-yaml - id: check-json @@ -12,12 +12,12 @@ repos: - id: end-of-file-fixer - id: trailing-whitespace - repo: https://github.com/kynan/nbstripout - rev: 0.7.1 + rev: 0.8.1 hooks: - id: nbstripout - repo: https://github.com/astral-sh/ruff-pre-commit # Ruff version. - rev: v0.5.7 + rev: v0.14.3 hooks: # Run the linter. - id: ruff diff --git a/pdm.lock b/pdm.lock index 8fe848c..bccf4a8 100644 --- a/pdm.lock +++ b/pdm.lock @@ -2,13 +2,13 @@ # It is not intended for manual editing. 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"madsci.node_module>=0.2.1", - + "madsci.node_module~=0.5.0", + "madsci.client~=0.5.0", + "madsci.common~=0.5.0", ] -requires-python = ">=3.9.1" +requires-python = ">=3.10,<3.14" readme = "README.md" license = {text = "MIT"} diff --git a/src/hidex_rest_node.py b/src/hidex_rest_node.py index 4e5ca96..a128ef6 100644 --- a/src/hidex_rest_node.py +++ b/src/hidex_rest_node.py @@ -5,13 +5,12 @@ import glob import os import time +from pathlib import Path from typing import Optional import clr -from madsci.client.resource_client import ResourceClient -from madsci.common.types.action_types import ActionFailed, ActionSucceeded +from madsci.common.types.action_types import ActionCancelled from madsci.common.types.admin_command_types import AdminCommandResponse -from madsci.common.types.auth_types import OwnershipInfo from madsci.common.types.node_types import RestNodeConfig from madsci.node_module.helpers import action from madsci.node_module.rest_node_module import RestNode @@ -30,6 +29,7 @@ class HidexNodeConfig(RestNodeConfig): """Configuration for the Hidex REST node""" output_path: Optional[str] = "C:\\Users\\rpl\\Desktop\\results" + """Path to write assay outputs to.""" class HidexNode(RestNode): @@ -37,54 +37,41 @@ class HidexNode(RestNode): hidex_interface: HA.HidexSenseAutomationServiceClient = None config_model = HidexNodeConfig + config: HidexNodeConfig = HidexNodeConfig() + + # TODO: RESOURCES def startup_handler(self) -> None: """Called to (re)initialize the node. Should be used to open connections to devices or initialize any other resources.""" - try: - if self.config.resource_server_url: - self.resource_client = ResourceClient(self.config.resource_server_url) - self.resource_owner = OwnershipInfo(node_id=self.node_definition.node_id) - else: - self.resource_client = None - self.logger.log("Node initializing...") - - sbe = SMC.ReliableSessionBindingElement() - binding = SMC.CustomBinding() - binding.Elements.Add(sbe) - binding.Elements.Add(SMC.BinaryMessageEncodingBindingElement()) - binding.Elements.Add(SMC.NamedPipeTransportBindingElement()) - self.hidex_interface = HA.HidexSenseAutomationServiceClient( - SM.InstanceContext(HN.Callback_Wrapper()), - binding, - SM.EndpointAddress(System.Uri("net.pipe://localhost/HidexSenseAutomation/")), - ) - self.hidex_interface.Connect(False) - state = self.hidex_interface.GetState() - print(self.hidex_interface.GetState() == state) - while self.hidex_interface.GetState() == state: - print(self.hidex_interface.GetState()) - time.sleep(0.5) + sbe = SMC.ReliableSessionBindingElement() + binding = SMC.CustomBinding() + binding.Elements.Add(sbe) + binding.Elements.Add(SMC.BinaryMessageEncodingBindingElement()) + binding.Elements.Add(SMC.NamedPipeTransportBindingElement()) + self.hidex_interface = HA.HidexSenseAutomationServiceClient( + SM.InstanceContext(HN.Callback_Wrapper()), + binding, + SM.EndpointAddress(System.Uri("net.pipe://localhost/HidexSenseAutomation/")), + ) + self.hidex_interface.Connect(False) + state = self.hidex_interface.GetState() + print(self.hidex_interface.GetState() == state) + while self.hidex_interface.GetState() == state: print(self.hidex_interface.GetState()) - self.cancelled = False - - except Exception as err: - self.logger.log_error(f"Error starting the Hidex Node: {err}") - self.startup_has_run = False - else: - self.startup_has_run = True - self.logger.log("Hidex node initialized!") + time.sleep(0.5) + print(self.hidex_interface.GetState()) + self.cancelled = False def shutdown_handler(self): """Called to shutdown the node. Should be used to close connections to devices or release any other resources.""" try: - self.logger.log("Shutting down") self.hidex_interface.Disconnect() self.shutdown_has_run = True del self.ur_interface self.hidex_interface = None - self.logger.log("Hidex node shutdown successfully!") except Exception as err: self.logger.log_error(f"Error shutting down the Hidex Node: {err}") + raise err def state_handler(self) -> None: """Handles the state of the Hidex node""" @@ -107,34 +94,24 @@ def state_handler(self) -> None: } self.logger.info("UNKNOWN") - @action(name="open", description="opens plate carrier") - def open(self): + @action(name="open", description="Open the plate carrier") + def open(self) -> None: """Opens the plate carrier""" - try: - self.hidex_interface.OpenPlateCarrier() - time.sleep(1) - except Exception as e: - self.logger.log_error(f"Error opening plate carrier: {e}") - return ActionFailed(errors=e) - return ActionSucceeded() + self.hidex_interface.OpenPlateCarrier() + time.sleep(1) - @action(name="close", description="closes plate carrier") - def close(self): + @action(name="close", description="Closes the plate carrier") + def close(self) -> None: """Closes the plate carrier""" - try: - self.hidex_interface.ClosePlateCarrier() - time.sleep(1) - except Exception as e: - self.logger.log_error(f"Error closing plate carrier: {e}") - return ActionFailed(errors=e) - return ActionSucceeded() + self.hidex_interface.ClosePlateCarrier() + time.sleep(1) - @action(name="run_assay", description="runs assay on the current sample") + @action(name="run_assay", description="Runs the specificed assay on the current sample") def run_assay( self, - assay_name: Annotated[str, "assay to run"], + assay_name: Annotated[str, "Name of the assay to run"], wait_for_result: Annotated[bool, "Whether we should wait for the results of the assay before returning"] = True, - ): + ) -> Optional[Annotated[Path, "The assay result"]]: """Runs assay on the current sample""" list_of_files = glob.glob(self.config.output_path + "\\*") # * means all if need specific format then *.csv @@ -152,10 +129,10 @@ def run_assay( ) # * means all if need specific format then *.csv latest_file = max(list_of_files, key=os.path.getctime) time.sleep(0.5) - return ActionSucceeded(files={"assay_result": latest_file}) - else: + return Path(latest_file) + elif self.cancelled: self.cancelled = False - return ActionSucceeded() + return ActionCancelled() def cancel(self) -> AdminCommandResponse: """Cancels the current assay""" diff --git a/tests/node_tests.ipynb b/tests/node_tests.ipynb index 5f52a9b..7220933 100644 --- a/tests/node_tests.ipynb +++ b/tests/node_tests.ipynb @@ -16,8 +16,6 @@ "outputs": [], "source": [ "from madsci.client.node.rest_node_client import RestNodeClient\n", - "from madsci.common.types.action_types import ActionRequest\n", - "from madsci.common.types.location_types import LocationArgument\n", "\n", "client = RestNodeClient(url=\"http://localhost:3022\")" ] From 666f860832442bf61c5df559affe0906ec8c6faa Mon Sep 17 00:00:00 2001 From: "Ryan D. Lewis" Date: Fri, 14 Nov 2025 16:54:56 -0600 Subject: [PATCH 11/14] Latest on 350 --- .github/ISSUE_TEMPLATE/bug_report.md | 30 - .github/ISSUE_TEMPLATE/config.yml | 1 - .github/ISSUE_TEMPLATE/feature_request.md | 20 - .github/ISSUE_TEMPLATE/other.md | 10 - .../ISSUE_TEMPLATE/question-issue-template.md | 10 - .pre-commit-config.yaml | 11 +- CODE_OF_CONDUCT.md | 128 --- LICENSE | 4 +- README.md | 41 +- definitions/hidex.info.yaml | 140 +++ definitions/hidex.node.yaml | 13 - definitions/hidex_howard.info.yaml | 141 +++ definitions/hidex_howard.node.yaml | 8 + example.env | 90 ++ pdm.lock | 841 +++++------------- pyproject.toml | 124 +-- ruff.toml | 125 +++ src/hidex_interface/.gitignore | 401 --------- src/hidex_interface/App.config | 22 +- .../HidexService/Arrays.xsd | 9 + ...ce.HidexService.InstrumentState.datasource | 10 + .../HidexService/HidexSense.Automation.xsd | 11 + .../HidexService/HidexSenseAutomation.wsdl | 169 ++++ .../HidexService/HidexSenseAutomation.xsd | 192 ++++ .../HidexService/Reference.cs | 340 +++++++ .../HidexService/Reference.svcmap | 36 + .../HidexService/configuration.svcinfo | 10 + .../HidexService/configuration91.svcinfo | 231 +++++ .../HidexService/service.wsdl | 170 ++++ .../HidexService/service.xsd | 42 + src/hidex_interface/GlobalSuppressions.cs | 8 - src/hidex_interface/HidexInterface.cs | 13 + src/hidex_interface/HidexInterface.csproj | 92 ++ .../{HidexNode.sln => HidexInterface.sln} | 14 +- src/hidex_interface/HidexNode.cs | 14 - src/hidex_interface/HidexNode.csproj | 269 ------ src/hidex_interface/HidexRestServer.cs | 158 ---- src/hidex_interface/packages.config | 40 - src/hidex_interface/utils.cs | 37 - src/hidex_rest_node.py | 163 ++-- 40 files changed, 2167 insertions(+), 2021 deletions(-) delete mode 100644 .github/ISSUE_TEMPLATE/bug_report.md delete mode 100644 .github/ISSUE_TEMPLATE/config.yml delete mode 100644 .github/ISSUE_TEMPLATE/feature_request.md delete mode 100644 .github/ISSUE_TEMPLATE/other.md delete mode 100644 .github/ISSUE_TEMPLATE/question-issue-template.md delete mode 100644 CODE_OF_CONDUCT.md create mode 100644 definitions/hidex.info.yaml delete mode 100644 definitions/hidex.node.yaml create mode 100644 definitions/hidex_howard.info.yaml create mode 100644 definitions/hidex_howard.node.yaml create mode 100644 example.env create mode 100644 ruff.toml delete mode 100644 src/hidex_interface/.gitignore create mode 100644 src/hidex_interface/Connected Services/HidexService/Arrays.xsd create mode 100644 src/hidex_interface/Connected Services/HidexService/HidexInterface.HidexService.InstrumentState.datasource create mode 100644 src/hidex_interface/Connected Services/HidexService/HidexSense.Automation.xsd create mode 100644 src/hidex_interface/Connected Services/HidexService/HidexSenseAutomation.wsdl create mode 100644 src/hidex_interface/Connected Services/HidexService/HidexSenseAutomation.xsd create mode 100644 src/hidex_interface/Connected Services/HidexService/Reference.cs create mode 100644 src/hidex_interface/Connected Services/HidexService/Reference.svcmap create mode 100644 src/hidex_interface/Connected Services/HidexService/configuration.svcinfo create mode 100644 src/hidex_interface/Connected Services/HidexService/configuration91.svcinfo create mode 100644 src/hidex_interface/Connected Services/HidexService/service.wsdl create mode 100644 src/hidex_interface/Connected Services/HidexService/service.xsd delete mode 100644 src/hidex_interface/GlobalSuppressions.cs create mode 100644 src/hidex_interface/HidexInterface.cs create mode 100644 src/hidex_interface/HidexInterface.csproj rename src/hidex_interface/{HidexNode.sln => HidexInterface.sln} (56%) delete mode 100644 src/hidex_interface/HidexNode.cs delete mode 100644 src/hidex_interface/HidexNode.csproj delete mode 100644 src/hidex_interface/HidexRestServer.cs delete mode 100644 src/hidex_interface/packages.config delete mode 100644 src/hidex_interface/utils.cs diff --git a/.github/ISSUE_TEMPLATE/bug_report.md b/.github/ISSUE_TEMPLATE/bug_report.md deleted file mode 100644 index 1af794e..0000000 --- a/.github/ISSUE_TEMPLATE/bug_report.md +++ /dev/null @@ -1,30 +0,0 @@ ---- -name: Bug report -about: Create a report to help us improve -title: '' -labels: 'bug' -assignees: '' - ---- - -**Describe the bug** -A clear and concise description of what the bug is. - -**To Reproduce** -Steps to reproduce the behavior: -1. Code with explanation -2. How to run code -3. The error - -**Expected behavior** -A clear and concise description of what you expected to happen. - -**Screenshots** -If applicable, add screenshots to help explain your problem. - -**Environment (please complete the following information):** - - OS: [e.g. Linux] - - Package versions implicated in the error (torch, mdlearn versions, etc) - -**Additional context** -Add any other context about the problem here. diff --git a/.github/ISSUE_TEMPLATE/config.yml b/.github/ISSUE_TEMPLATE/config.yml deleted file mode 100644 index 3ba13e0..0000000 --- a/.github/ISSUE_TEMPLATE/config.yml +++ /dev/null @@ -1 +0,0 @@ -blank_issues_enabled: false diff --git a/.github/ISSUE_TEMPLATE/feature_request.md b/.github/ISSUE_TEMPLATE/feature_request.md deleted file mode 100644 index 36014cd..0000000 --- a/.github/ISSUE_TEMPLATE/feature_request.md +++ /dev/null @@ -1,20 +0,0 @@ ---- -name: Feature request -about: Suggest an idea for this project -title: '' -labels: 'enhancement' -assignees: '' - ---- - -**Is your feature request related to a problem? Please describe.** -A clear and concise description of what the problem is. Ex. I'm always frustrated when [...] - -**Describe the solution you'd like** -A clear and concise description of what you want to happen. - -**Describe alternatives you've considered** -A clear and concise description of any alternative solutions or features you've considered. - -**Additional context** -Add any other context or screenshots about the feature request here. diff --git a/.github/ISSUE_TEMPLATE/other.md b/.github/ISSUE_TEMPLATE/other.md deleted file mode 100644 index 66da7ad..0000000 --- a/.github/ISSUE_TEMPLATE/other.md +++ /dev/null @@ -1,10 +0,0 @@ ---- -name: Other issue template -about: Any issue that does not fit the other templates -title: '' -labels: '' -assignees: '' - ---- - -**Description** diff --git a/.github/ISSUE_TEMPLATE/question-issue-template.md b/.github/ISSUE_TEMPLATE/question-issue-template.md deleted file mode 100644 index a422d18..0000000 --- a/.github/ISSUE_TEMPLATE/question-issue-template.md +++ /dev/null @@ -1,10 +0,0 @@ ---- -name: Question issue template -about: Ask a question about how to use mdlearn -title: '' -labels: question -assignees: '' - ---- - -**Describe the question** diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index 8153ae3..517944e 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -1,9 +1,8 @@ repos: - repo: https://github.com/pre-commit/pre-commit-hooks - rev: v4.6.0 + rev: v5.0.0 hooks: - id: check-yaml - - id: check-json - id: check-toml - id: check-ast - id: check-merge-conflict @@ -12,15 +11,19 @@ repos: - id: end-of-file-fixer - id: trailing-whitespace - repo: https://github.com/kynan/nbstripout - rev: 0.7.1 + rev: 0.8.1 hooks: - id: nbstripout - repo: https://github.com/astral-sh/ruff-pre-commit # Ruff version. - rev: v0.5.7 + rev: v0.11.9 hooks: # Run the linter. - id: ruff args: [--fix] # Run the formatter. - id: ruff-format + - repo: https://gitlab.com/bmares/check-json5 + rev: v1.0.0 + hooks: + - id: check-json5 diff --git a/CODE_OF_CONDUCT.md b/CODE_OF_CONDUCT.md deleted file mode 100644 index bce6070..0000000 --- a/CODE_OF_CONDUCT.md +++ /dev/null @@ -1,128 +0,0 @@ -# Contributor Covenant Code of Conduct - -## Our Pledge - -We as members, contributors, and leaders pledge to make participation in our -community a harassment-free experience for everyone, regardless of age, body -size, visible or invisible disability, ethnicity, sex characteristics, gender -identity and expression, level of experience, education, socio-economic status, -nationality, personal appearance, race, religion, or sexual identity -and orientation. - -We pledge to act and interact in ways that contribute to an open, welcoming, -diverse, inclusive, and healthy community. - -## Our Standards - -Examples of behavior that contributes to a positive environment for our -community include: - -* Demonstrating empathy and kindness toward other people -* Being respectful of differing opinions, viewpoints, and experiences -* Giving and gracefully accepting constructive feedback -* Accepting responsibility and apologizing to those affected by our mistakes, - and learning from the experience -* Focusing on what is best not just for us as individuals, but for the - overall community - -Examples of unacceptable behavior include: - -* The use of sexualized language or imagery, and sexual attention or - advances of any kind -* Trolling, insulting or derogatory comments, and personal or political attacks -* Public or private harassment -* Publishing others' private information, such as a physical or email - address, without their explicit permission -* Other conduct which could reasonably be considered inappropriate in a - professional setting - -## Enforcement Responsibilities - -Community leaders are responsible for clarifying and enforcing our standards of -acceptable behavior and will take appropriate and fair corrective action in -response to any behavior that they deem inappropriate, threatening, offensive, -or harmful. - -Community leaders have the right and responsibility to remove, edit, or reject -comments, commits, code, wiki edits, issues, and other contributions that are -not aligned to this Code of Conduct, and will communicate reasons for moderation -decisions when appropriate. - -## Scope - -This Code of Conduct applies within all community spaces, and also applies when -an individual is officially representing the community in public spaces. -Examples of representing our community include using an official e-mail address, -posting via an official social media account, or acting as an appointed -representative at an online or offline event. - -## Enforcement - -Instances of abusive, harassing, or otherwise unacceptable behavior may be -reported to the community leaders responsible for enforcement at -kyle.hippe@gmail.com. -All complaints will be reviewed and investigated promptly and fairly. - -All community leaders are obligated to respect the privacy and security of the -reporter of any incident. - -## Enforcement Guidelines - -Community leaders will follow these Community Impact Guidelines in determining -the consequences for any action they deem in violation of this Code of Conduct: - -### 1. Correction - -**Community Impact**: Use of inappropriate language or other behavior deemed -unprofessional or unwelcome in the community. - -**Consequence**: A private, written warning from community leaders, providing -clarity around the nature of the violation and an explanation of why the -behavior was inappropriate. A public apology may be requested. - -### 2. Warning - -**Community Impact**: A violation through a single incident or series -of actions. - -**Consequence**: A warning with consequences for continued behavior. No -interaction with the people involved, including unsolicited interaction with -those enforcing the Code of Conduct, for a specified period of time. This -includes avoiding interactions in community spaces as well as external channels -like social media. Violating these terms may lead to a temporary or -permanent ban. - -### 3. Temporary Ban - -**Community Impact**: A serious violation of community standards, including -sustained inappropriate behavior. - -**Consequence**: A temporary ban from any sort of interaction or public -communication with the community for a specified period of time. No public or -private interaction with the people involved, including unsolicited interaction -with those enforcing the Code of Conduct, is allowed during this period. -Violating these terms may lead to a permanent ban. - -### 4. Permanent Ban - -**Community Impact**: Demonstrating a pattern of violation of community -standards, including sustained inappropriate behavior, harassment of an -individual, or aggression toward or disparagement of classes of individuals. - -**Consequence**: A permanent ban from any sort of public interaction within -the community. - -## Attribution - -This Code of Conduct is adapted from the [Contributor Covenant][homepage], -version 2.0, available at -https://www.contributor-covenant.org/version/2/0/code_of_conduct.html. - -Community Impact Guidelines were inspired by [Mozilla's code of conduct -enforcement ladder](https://github.com/mozilla/diversity). - -[homepage]: https://www.contributor-covenant.org - -For answers to common questions about this code of conduct, see the FAQ at -https://www.contributor-covenant.org/faq. Translations are available at -https://www.contributor-covenant.org/translations. diff --git a/LICENSE b/LICENSE index 747a89a..704342c 100644 --- a/LICENSE +++ b/LICENSE @@ -13,8 +13,8 @@ The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software. THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR -IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, -FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE +IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHidexServiceNTABILITY, +FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHidexServiceLL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE diff --git a/README.md b/README.md index 4d61614..5e90e52 100644 --- a/README.md +++ b/README.md @@ -2,14 +2,41 @@ Contains `hidex_node`, providing an interface and adapter that works alongside the Hidex Plate Reader's first party driver to control the instrument. -## Installation Notes +## Building the C# Solution -To make the server accessible, run the following in a terminal as Administrator +To use this interface, you must first open `src/hidex_interface/HidexInterface.sln` and build the solution. -``` -netsh http add urlacl url=http://+:2005/ user= listen=yes delegate=yes -``` +## Python Installation/Usage + +This package is Windows-only. + +### Using virtualenv + +1. Open Command Prompt and navigate to the project directory. +2. Create a virtual environment: + ``` + python -m venv venv + ``` +3. Activate the virtual environment: + ``` + venv\Scripts\activate + ``` +4. Install the package and dependencies: + ``` + pip install -r requirements.txt + ``` + +### Using pdm + +1. Install PDM if you don't have it: https://pdm-project.org/latest/#installation +2. Navigate to the project directory. +3. Install dependencies: + ``` + pdm install + ``` +4. To start the node: + ``` + pdm run python src/hidex_rest_node.py + ``` -Replace `2005` with the port you intend to use, if it differs from the default, and `` with the username that will be running the server (you may need to use the form `DOMAIN/USER`) -To interface with the module from another device, you'll need to [open up the port](https://www.windowscentral.com/how-open-port-windows-firewall) you intend to run the module's server on (2005 by default). diff --git a/definitions/hidex.info.yaml b/definitions/hidex.info.yaml new file mode 100644 index 0000000..317a342 --- /dev/null +++ b/definitions/hidex.info.yaml @@ -0,0 +1,140 @@ +node_name: hidex +node_id: 01JWHD6HPNXMCKNHZK53VYVNQH +node_description: A rest node for Hidex Module +node_type: device +module_name: hidex_module +module_version: 0.0.1 +capabilities: + get_info: true + get_state: true + get_status: true + send_action: true + get_action_result: true + get_action_history: true + action_files: true + send_admin_commands: true + set_config: true + get_resources: false + get_log: true + admin_commands: + - cancel + - lock + - reset + - shutdown + - unlock +node_url: null +actions: + open: + name: open + description: opens plate carrier + args: {} + locations: {} + files: {} + results: {} + blocking: false + asynchronous: true + close: + name: close + description: closes plate carrier + args: {} + locations: {} + files: {} + results: {} + blocking: false + asynchronous: true + run_assay: + name: run_assay + description: runs assay on the current sample + args: + assay_name: + name: assay_name + description: assay to run + argument_type: str + required: true + default: null + wait_for_result: + name: wait_for_result + description: Whether we should wait for the results of the assay before returning + argument_type: bool + required: false + default: true + locations: {} + files: {} + results: {} + blocking: false + asynchronous: true +config: + node_definition: definitions/hidex.node.yaml + node_info_path: null + update_node_files: true + status_update_interval: 2.0 + state_update_interval: 2.0 + node_url: http://127.0.0.1:2000/ + uvicorn_kwargs: {} + output_path: C:\Users\svcaibio\Desktop\results +config_schema: + description: Configuration for the Hidex REST node + properties: + node_definition: + anyOf: + - type: string + - format: path + type: string + - type: 'null' + default: default.node.yaml + description: Path to the node definition file to use. If set, the node will + load the definition from this file on startup. Otherwise, a default configuration + will be created. + title: Node Definition File + node_info_path: + anyOf: + - type: string + - format: path + type: string + - type: 'null' + default: null + description: Path to export the generated node info file. If not set, will use + the node name and the node_definition's path. + title: Node Info Path + update_node_files: + default: true + description: Whether to update the node definition and info files on startup. + If set to False, the node will not update the files even if they are out of + date. + title: Update Node Files + type: boolean + status_update_interval: + anyOf: + - type: number + - type: 'null' + default: 2.0 + description: The interval in seconds at which the node should update its status. + title: Status Update Interval + state_update_interval: + anyOf: + - type: number + - type: 'null' + default: 2.0 + description: The interval in seconds at which the node should update its state. + title: State Update Interval + node_url: + default: http://127.0.0.1:2000/ + description: The URL used to communicate with the node. This is the base URL + for the REST API. + format: uri + minLength: 1 + title: Node URL + type: string + uvicorn_kwargs: + additionalProperties: true + description: Configuration for the Uvicorn server that runs the REST API. + title: Uvicorn Configuration + type: object + output_path: + anyOf: + - type: string + - type: 'null' + default: C:\Users\svcaibio\Desktop\results + title: Output Path + title: HidexNodeConfig + type: object diff --git a/definitions/hidex.node.yaml b/definitions/hidex.node.yaml deleted file mode 100644 index ca8280f..0000000 --- a/definitions/hidex.node.yaml +++ /dev/null @@ -1,13 +0,0 @@ -node_name: hidex -node_id: 01JWHD6HPNXMCKNHZK53VYVNQH -node_url: null -node_description: A rest node for Hidex Module -node_type: device -module_name: hidex_module -module_version: 0.0.1 -capabilities: null -commands: {} -is_template: false -config_defaults: - host: localhost - port: 3022 diff --git a/definitions/hidex_howard.info.yaml b/definitions/hidex_howard.info.yaml new file mode 100644 index 0000000..4cb8ba5 --- /dev/null +++ b/definitions/hidex_howard.info.yaml @@ -0,0 +1,141 @@ +node_name: hidex_howard +node_id: 01JWHD6HPNXMCKNHZK53VYVNQH +node_description: A rest node for the Hidex located on the East end of the Baker Enclosure + in ANL's RAPID 350 SDL +node_type: device +module_name: hidex_module +module_version: 1.1.0 +capabilities: + get_info: true + get_state: true + get_status: true + send_action: true + get_action_result: true + get_action_history: true + action_files: true + send_admin_commands: true + set_config: true + get_resources: false + get_log: true + admin_commands: + - cancel + - lock + - reset + - shutdown + - unlock +node_url: null +actions: + open: + name: open + description: opens plate carrier + args: {} + locations: {} + files: {} + results: {} + blocking: false + asynchronous: true + close: + name: close + description: closes plate carrier + args: {} + locations: {} + files: {} + results: {} + blocking: false + asynchronous: true + run_assay: + name: run_assay + description: runs assay on the current sample + args: + assay_name: + name: assay_name + description: assay to run + argument_type: str + required: true + default: null + wait_for_result: + name: wait_for_result + description: Whether we should wait for the results of the assay before returning + argument_type: bool + required: false + default: true + locations: {} + files: {} + results: {} + blocking: false + asynchronous: true +config: + node_definition: definitions/hidex_howard.node.yaml + node_info_path: null + update_node_files: true + status_update_interval: 2.0 + state_update_interval: 2.0 + node_url: http://hudson01.cels.anl.gov:2000/ + uvicorn_kwargs: {} + output_path: C:\Users\svcaibio\Desktop\results +config_schema: + description: Configuration for the Hidex REST node + properties: + node_definition: + anyOf: + - type: string + - format: path + type: string + - type: 'null' + default: default.node.yaml + description: Path to the node definition file to use. If set, the node will + load the definition from this file on startup. Otherwise, a default configuration + will be created. + title: Node Definition File + node_info_path: + anyOf: + - type: string + - format: path + type: string + - type: 'null' + default: null + description: Path to export the generated node info file. If not set, will use + the node name and the node_definition's path. + title: Node Info Path + update_node_files: + default: true + description: Whether to update the node definition and info files on startup. + If set to False, the node will not update the files even if they are out of + date. + title: Update Node Files + type: boolean + status_update_interval: + anyOf: + - type: number + - type: 'null' + default: 2.0 + description: The interval in seconds at which the node should update its status. + title: Status Update Interval + state_update_interval: + anyOf: + - type: number + - type: 'null' + default: 2.0 + description: The interval in seconds at which the node should update its state. + title: State Update Interval + node_url: + default: http://127.0.0.1:2000/ + description: The URL used to communicate with the node. This is the base URL + for the REST API. + format: uri + minLength: 1 + title: Node URL + type: string + uvicorn_kwargs: + additionalProperties: true + description: Configuration for the Uvicorn server that runs the REST API. + title: Uvicorn Configuration + type: object + output_path: + anyOf: + - type: string + - type: 'null' + default: C:\Users\svcaibio\Desktop\results + title: Output Path + title: HidexNodeConfig + type: object diff --git a/definitions/hidex_howard.node.yaml b/definitions/hidex_howard.node.yaml new file mode 100644 index 0000000..653cac7 --- /dev/null +++ b/definitions/hidex_howard.node.yaml @@ -0,0 +1,8 @@ +node_name: hidex_howard +node_id: 01JWHD6HPNXMCKNHZK53VYVNQH +node_description: A rest node for the Hidex located on the East end of the Baker Enclosure + in ANL's RAPID 350 SDL +node_type: device +module_name: hidex_module +module_version: 1.1.0 +capabilities: null diff --git a/example.env b/example.env new file mode 100644 index 0000000..b1a6c3c --- /dev/null +++ b/example.env @@ -0,0 +1,90 @@ +# NODE_URL=http://localhost:2000 +NODE_DEFINITION=definitions/hidex.node.yaml + + +### MadsciContext + +# LAB_SERVER_URL=null +# EVENT_SERVER_URL=null +# EXPERIMENT_SERVER_URL=null +# DATA_SERVER_URL=null +# RESOURCE_SERVER_URL=null +# WORKCELL_SERVER_URL=null + +### EventClientConfig + +# EVENT_CLIENT_NAME=null +# EVENT_SERVER_URL=null +# EVENT_CLIENT_LOG_LEVEL=20 +# EVENT_CLIENT_LOG_DIR="~/.madsci/logs" + +### OwnershipInfo + +# EVENT_CLIENT_SOURCE__USER_ID=null +# EVENT_CLIENT_SOURCE__EXPERIMENT_ID=null +# EVENT_CLIENT_SOURCE__CAMPAIGN_ID=null +# EVENT_CLIENT_SOURCE__PROJECT_ID=null +# EVENT_CLIENT_SOURCE__NODE_ID=null +# EVENT_CLIENT_SOURCE__WORKCELL_ID=null +# EVENT_CLIENT_SOURCE__LAB_ID=null +# EVENT_CLIENT_SOURCE__STEP_ID=null +# EVENT_CLIENT_SOURCE__WORKFLOW_ID=null +# EVENT_CLIENT_SOURCE__MANAGER_ID=null + +### ObjectStorageSettings + +# OBJECT_STORAGE_ENDPOINT=null +# OBJECT_STORAGE_ACCESS_KEY="" +# OBJECT_STORAGE_SECRET_KEY="" +# OBJECT_STORAGE_SECURE=false +# OBJECT_STORAGE_DEFAULT_BUCKET="madsci-data" +# OBJECT_STORAGE_REGION=null + +### DataManagerSettings + +# DATA_SERVER_URL="http://localhost:8004/" +# DATA_MANAGER_DEFINITION="data.manager.yaml" +# DATA_DB_URL="mongodb://localhost:27017" +# DATA_FILE_STORAGE_PATH="~/.madsci/datapoints" + +### EventManagerSettings + +# EVENT_SERVER_URL="http://localhost:8001" +# EVENT_MANAGER_DEFINITION="event.manager.yaml" +# EVENTS_DB_URL="mongodb://localhost:27017" +# EVENTS_COLLECTION_NAME="madsci_events" +# EVENTS_ALERT_LEVEL=40 +# EVENTS_EMAIL_ALERTS=null + +### WorkcellManagerSettings + +# WORKCELL_SERVER_URL="http://localhost:8005/" +# WORKCELL_DEFINITION="workcell.manager.yaml" +# WORKCELLS_DIRECTORY="~/.madsci/workcells" +# WORKCELL_REDIS_HOST="localhost" +# WORKCELL_REDIS_PORT=6379 +# WORKCELL_REDIS_PASSWORD=null +# WORKCELL_SCHEDULER_UPDATE_INTERVAL=2.0 +# WORKCELL_NODE_UPDATE_INTERVAL=1.0 +# WORKCELL_COLD_START_DELAY=0 +# WORKCELL_SCHEDULER="madsci.workcell_manager.schedulers.default_scheduler" +# WORKCELL_MONGO_URL=null +# WORKCELL_GET_ACTION_RESULT_RETRIES=3 + +### ExperimentManagerSettings + +# EXPERIMENT_SERVER_URL="http://localhost:8002" +# EXPERIMENT_MANAGER_DEFINITION="experiment.manager.yaml" +# EXPERIMENTS_DB_URL="mongodb://localhost:27017" + +### ResourceManagerSettings + +# RESOURCE_SERVER_URL="http://localhost:8003" +# RESOURCE_MANAGER_DEFINITION="resource.manager.yaml" +# RESOURCES_DB_URL="postgresql://madsci:madsci@localhost:5432/resources" + +### LabManagerSettings + +# LAB_SERVER_URL="http://localhost:8000/" +# LAB_DASHBOARD_FILES_PATH="~/MADSci/src/madsci_squid/ui/dist" +# LAB_DEFINITION="lab.manager.yaml" \ No newline at end of file diff --git a/pdm.lock b/pdm.lock index 8fe848c..39325b1 100644 --- a/pdm.lock +++ b/pdm.lock @@ -2,13 +2,13 @@ # It is not intended for manual editing. [metadata] -groups = ["default"] +groups = ["default", "dev"] strategy = ["inherit_metadata"] lock_version = "4.5.0" -content_hash = "sha256:a76693b54c1c11ff7dc4721ef83f3a2b8641e0f9ff84681615e5757f56f97025" +content_hash = "sha256:59ceae297a40f67c07969b6b514043cac474d37ab93f294500ab97002f608f4e" [[metadata.targets]] -requires_python = ">=3.9.1" +requires_python = ">=3.12,<3.13" [[package]] name = "aenum" @@ -109,30 +109,6 @@ dependencies = [ "pycparser", ] files = [ - {file = "cffi-1.17.1-cp310-cp310-macosx_10_9_x86_64.whl", hash = "sha256:df8b1c11f177bc2313ec4b2d46baec87a5f3e71fc8b45dab2ee7cae86d9aba14"}, - {file = "cffi-1.17.1-cp310-cp310-macosx_11_0_arm64.whl", hash = "sha256:8f2cdc858323644ab277e9bb925ad72ae0e67f69e804f4898c070998d50b1a67"}, - {file = "cffi-1.17.1-cp310-cp310-manylinux_2_12_i686.manylinux2010_i686.manylinux_2_17_i686.manylinux2014_i686.whl", hash = "sha256:edae79245293e15384b51f88b00613ba9f7198016a5948b5dddf4917d4d26382"}, - {file = "cffi-1.17.1-cp310-cp310-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:45398b671ac6d70e67da8e4224a065cec6a93541bb7aebe1b198a61b58c7b702"}, - 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"fastapi>=0.103", - "uvicorn>=0.14.0", - "pytest", "pythonnet", - "madsci.node_module>=0.2.1", - + "madsci.node_module>=0.4.3", + "madsci.common>=0.4.3", + "madsci.client>=0.4.3", ] -requires-python = ">=3.9.1" +requires-python = ">=3.12,<3.13" readme = "README.md" license = {text = "MIT"} @@ -29,116 +27,6 @@ homepage = "https://github.com/AD-SDL/hidex_module" requires = ["setuptools>=61", "wheel"] build-backend = "setuptools.build_meta" -##################### -# Development Tools # -##################### - -[tool.ruff] -# https://docs.astral.sh/ruff/configuration/ - -# Exclude a variety of commonly ignored directories. -exclude = [ - ".bzr", - ".direnv", - ".eggs", - ".git", - ".git-rewrite", - ".hg", - ".mypy_cache", - ".nox", - ".pants.d", - ".pytype", - ".ruff_cache", - ".svn", - ".tox", - ".venv", - "__pypackages__", - "_build", - "buck-out", - "build", - "dist", - "node_modules", - "venv", - "docs", -] - -# Same as Black. -line-length = 120 -indent-width = 4 - -# Assume Python 3.8 -target-version = "py38" - -[tool.ruff.lint] -# Enable Pyflakes (`F`) and a subset of the pycodestyle (`E`) codes by default. -select = [ - # pycodestyle - "E", - # Pyflakes - "F", - # pyupgrade - # "UP", - # flake8-bugbear - "B", - # flake8-simplify - # "SIM", - # isort - "I", - # Warning - "W", - # pydocstyle - "D100", "D101", "D102", "D103", "D104", "D105", "D106", "D107", - # ruff - # "RUF" -] -ignore = [ - "E501", # Line too long - "B006", # Do not use mutable data structures for argument defaults -] - -# Allow fix for all enabled rules (when `--fix`) is provided. -fixable = ["ALL"] -unfixable = [] - -# Allow unused variables when underscore-prefixed. -dummy-variable-rgx = "^(_+|(_+[a-zA-Z0-9_]*[a-zA-Z0-9]+?))$" - -[tool.ruff.format] -# Like Black, use double quotes for strings. -quote-style = "double" - -# Like Black, indent with spaces, rather than tabs. -indent-style = "space" - -# Like Black, respect magic trailing commas. -skip-magic-trailing-comma = false - -# Like Black, automatically detect the appropriate line ending. -line-ending = "auto" - -[tool.pytest.ini_options] -# https://docs.pytest.org/en/stable/customize.html -addopts = "-x" -junit_family="xunit1" -filterwarnings = [ - "ignore::DeprecationWarning", - "ignore::pottery.exceptions.InefficientAccessWarning", -] -markers = [ - "hardware: marks test as requiring hardware (deselect with '-m \"not hardware\"')", -] - -[tool.mypy] -# https://mypy.readthedocs.io/en/stable/config_file.html#using-a-pyproject-toml -show_error_codes = true -check_untyped_defs = true -follow_imports = "normal" -strict_optional = true -plugins = ["pydantic.mypy"] -strict = true -disallow_untyped_defs = true -implicit_reexport = true - [dependency-groups] dev = [ "pre-commit>=4.2.0", diff --git a/ruff.toml b/ruff.toml new file mode 100644 index 0000000..db2463c --- /dev/null +++ b/ruff.toml @@ -0,0 +1,125 @@ +# https://docs.astral.sh/ruff/configuration/ + +# Exclude a variety of commonly ignored directories. +exclude = [ + ".bzr", + ".direnv", + ".eggs", + ".git", + ".git-rewrite", + ".hg", + ".mypy_cache", + ".nox", + ".pants.d", + ".pytype", + ".ruff_cache", + ".svn", + ".tox", + ".venv", + "__pypackages__", + "_build", + "buck-out", + "build", + "dist", + "node_modules", + "venv", + ".venv", + "docs", +] + +# Same as Black. +line-length = 88 +indent-width = 4 + +# Assume Python 3.9 +target-version = "py39" + +[lint] +# Enable Pyflakes (`F`) and a subset of the pycodestyle (`E`) codes by default. +select = [ + # pycodestyle + "E", + # Pyflakes + "F", + # pyupgrade + "UP", + # flake8-bugbear + "B", + # flake8-simplify + "SIM", + # isort + "I", + # Warning + "W", + # pydocstyle + "D100", "D101", "D102", "D103", "D104", "D105", "D106", "D107", + # ruff + "RUF", + # McCabe Complexity + "C90", + # pep8-naming (N) + "N", + # flake8-2020 (YTT) + "YTT", + # flake8-annotations (ANN) + "ANN", + # flake8-async + "ASYNC", + # flake8-bandit + "S", + # flake8-commas + "COM", + # flake8-use-pathlib + "PTH", + # FastAPI + "FAST", + # flake8-logging + "LOG", + # flake8-comprehensions + "C4", + # flake8-pie + "PIE", + # flake8-return + "RET", + # Pylint + "PL", + # eradicate + "ERA", + # refurb + "FURB", + # flake-8-unused-arguments + "ARG", + # flake-8-print + "T20", +] +ignore = [ + "E501", # Line too long + "B006", # Do not use mutable data structures for argument defaults + "ANN401", # Don't flag Any types + "COM812", # Don't fight over trailing commas + "PLR0913", # Allow for a reasonable number of arguments + "PLR2004", # Magic value used in comparison +] + +# Allow fix for all enabled rules (when `--fix`) is provided. +fixable = ["ALL"] +unfixable = [] + +# Allow unused variables when underscore-prefixed. +dummy-variable-rgx = "^(_+|(_+[a-zA-Z0-9_]*[a-zA-Z0-9]+?))$" + +[lint.per-file-ignores] +"**/tests/**/*.py" = ["S101"] + +[format] +# Like Black, use double quotes for strings. +quote-style = "double" + +# Like Black, indent with spaces, rather than tabs. +indent-style = "space" + +# Like Black, respect magic trailing commas. +skip-magic-trailing-comma = false + +# Like Black, automatically detect the appropriate line ending. +line-ending = "auto" diff --git a/src/hidex_interface/.gitignore b/src/hidex_interface/.gitignore deleted file mode 100644 index e427405..0000000 --- a/src/hidex_interface/.gitignore +++ /dev/null @@ -1,401 +0,0 @@ -## Ignore Visual Studio temporary files, build results, and -## files generated by popular Visual Studio add-ons. -## -## Get latest from https://github.com/github/gitignore/blob/main/VisualStudio.gitignore - -# User-specific files -*.rsuser -*.suo -*.user -*.userosscache -*.sln.docstates - -# User-specific files (MonoDevelop/Xamarin Studio) -*.userprefs - -# Mono auto generated files -mono_crash.* - -# Build results -[Dd]ebug/ -[Dd]ebugPublic/ -[Rr]elease/ -[Rr]eleases/ -x64/ -x86/ -[Ww][Ii][Nn]32/ -[Aa][Rr][Mm]/ -[Aa][Rr][Mm]64/ -bld/ -[Bb]in/ -[Oo]bj/ -[Ll]og/ -[Ll]ogs/ - -# Visual Studio 2015/2017 cache/options directory -.vs/ -# Uncomment if you have tasks that create the project's static files in wwwroot -#wwwroot/ - -# Visual Studio 2017 auto generated files -Generated\ Files/ - -# MSTest test Results -[Tt]est[Rr]esult*/ -[Bb]uild[Ll]og.* - -# NUnit -*.VisualState.xml -TestResult.xml -nunit-*.xml - -# Build Results of an ATL Project -[Dd]ebugPS/ -[Rr]eleasePS/ -dlldata.c - -# Benchmark Results -BenchmarkDotNet.Artifacts/ - -# .NET Core -project.lock.json -project.fragment.lock.json -artifacts/ - -# ASP.NET Scaffolding -ScaffoldingReadMe.txt - -# StyleCop -StyleCopReport.xml - -# Files built by Visual Studio -*_i.c -*_p.c -*_h.h -*.ilk -*.meta -*.obj -*.iobj -*.pch -*.pdb -*.ipdb -*.pgc -*.pgd -*.rsp -*.sbr -*.tlb -*.tli -*.tlh -*.tmp -*.tmp_proj -*_wpftmp.csproj -*.log -*.tlog -*.vspscc -*.vssscc -.builds -*.pidb -*.svclog -*.scc - -# Chutzpah Test files -_Chutzpah* - -# Visual C++ cache files -ipch/ -*.aps -*.ncb -*.opendb -*.opensdf -*.sdf -*.cachefile -*.VC.db -*.VC.VC.opendb - -# Visual Studio profiler -*.psess -*.vsp -*.vspx -*.sap - -# Visual Studio Trace Files -*.e2e - -# TFS 2012 Local Workspace -$tf/ - -# Guidance Automation Toolkit -*.gpState - -# ReSharper is a .NET coding add-in -_ReSharper*/ -*.[Rr]e[Ss]harper -*.DotSettings.user - -# TeamCity is a build add-in -_TeamCity* - -# DotCover is a Code Coverage Tool -*.dotCover - -# AxoCover is a Code Coverage Tool -.axoCover/* -!.axoCover/settings.json - -# Coverlet is a free, cross platform Code Coverage Tool -coverage*.json -coverage*.xml -coverage*.info - -# Visual Studio code coverage results -*.coverage -*.coveragexml - -# NCrunch -_NCrunch_* -.*crunch*.local.xml -nCrunchTemp_* - -# MightyMoose -*.mm.* -AutoTest.Net/ - -# Web workbench (sass) -.sass-cache/ - -# Installshield output folder -[Ee]xpress/ - -# DocProject is a documentation generator add-in -DocProject/buildhelp/ -DocProject/Help/*.HxT -DocProject/Help/*.HxC -DocProject/Help/*.hhc -DocProject/Help/*.hhk -DocProject/Help/*.hhp -DocProject/Help/Html2 -DocProject/Help/html - -# Click-Once directory -publish/ - -# Publish Web Output -*.[Pp]ublish.xml -*.azurePubxml -# Note: Comment the next line if you want to checkin your web deploy settings, -# but database connection strings (with potential passwords) will be unencrypted -*.pubxml -*.publishproj - -# Microsoft Azure Web App publish settings. Comment the next line if you want to -# checkin your Azure Web App publish settings, but sensitive information contained -# in these scripts will be unencrypted -PublishScripts/ - -# NuGet Packages -*.nupkg -# NuGet Symbol Packages -*.snupkg -# The packages folder can be ignored because of Package Restore -**/[Pp]ackages/* -# except build/, which is used as an MSBuild target. -!**/[Pp]ackages/build/ -# Uncomment if necessary however generally it will be regenerated when needed -#!**/[Pp]ackages/repositories.config -# NuGet v3's project.json files produces more ignorable files -*.nuget.props -*.nuget.targets - -# Microsoft Azure Build Output -csx/ -*.build.csdef - -# Microsoft Azure Emulator -ecf/ -rcf/ - -# Windows Store app package directories and files -AppPackages/ -BundleArtifacts/ -Package.StoreAssociation.xml -_pkginfo.txt -*.appx -*.appxbundle -*.appxupload - -# Visual Studio cache files -# files ending in .cache can be ignored -*.[Cc]ache -# but keep track of directories ending in .cache -!?*.[Cc]ache/ - -# Others -ClientBin/ -~$* -*~ -*.dbmdl -*.dbproj.schemaview -*.jfm -*.pfx -*.publishsettings -orleans.codegen.cs - -# Including strong name files can present a security risk -# (https://github.com/github/gitignore/pull/2483#issue-259490424) -#*.snk - -# Since there are multiple workflows, uncomment next line to ignore bower_components -# (https://github.com/github/gitignore/pull/1529#issuecomment-104372622) -#bower_components/ - -# RIA/Silverlight projects -Generated_Code/ - -# Backup & report files from converting an old project file -# to a newer Visual Studio version. Backup files are not needed, -# because we have git ;-) -_UpgradeReport_Files/ -Backup*/ -UpgradeLog*.XML -UpgradeLog*.htm -ServiceFabricBackup/ -*.rptproj.bak - -# SQL Server files -*.mdf -*.ldf -*.ndf - -# Business Intelligence projects -*.rdl.data -*.bim.layout -*.bim_*.settings -*.rptproj.rsuser -*- [Bb]ackup.rdl -*- [Bb]ackup ([0-9]).rdl -*- [Bb]ackup ([0-9][0-9]).rdl - -# Microsoft Fakes -FakesAssemblies/ - -# GhostDoc plugin setting file -*.GhostDoc.xml - -# Node.js Tools for Visual Studio -.ntvs_analysis.dat -node_modules/ - -# Visual Studio 6 build log -*.plg - -# Visual Studio 6 workspace options file -*.opt - -# Visual Studio 6 auto-generated workspace file (contains which files were open etc.) -*.vbw - -# Visual Studio 6 auto-generated project file (contains which files were open etc.) -*.vbp - -# Visual Studio 6 workspace and project file (working project files containing files to include in project) -*.dsw -*.dsp - -# Visual Studio 6 technical files -*.ncb -*.aps - -# Visual Studio LightSwitch build output -**/*.HTMLClient/GeneratedArtifacts -**/*.DesktopClient/GeneratedArtifacts -**/*.DesktopClient/ModelManifest.xml -**/*.Server/GeneratedArtifacts -**/*.Server/ModelManifest.xml -_Pvt_Extensions - -# Paket dependency manager -.paket/paket.exe -paket-files/ - -# FAKE - F# Make -.fake/ - -# CodeRush personal settings -.cr/personal - -# Python Tools for Visual Studio (PTVS) -__pycache__/ -*.pyc - -# Cake - Uncomment if you are using it -# tools/** -# !tools/packages.config - -# Tabs Studio -*.tss - -# Telerik's JustMock configuration file -*.jmconfig - -# BizTalk build output -*.btp.cs -*.btm.cs -*.odx.cs -*.xsd.cs - -# OpenCover UI analysis results -OpenCover/ - -# Azure Stream Analytics local run output -ASALocalRun/ - -# MSBuild Binary and Structured Log -*.binlog - -# NVidia Nsight GPU debugger configuration file -*.nvuser - -# MFractors (Xamarin productivity tool) working folder -.mfractor/ - -# Local History for Visual Studio -.localhistory/ - -# Visual Studio History (VSHistory) files -.vshistory/ - -# BeatPulse healthcheck temp database -healthchecksdb - -# Backup folder for Package Reference Convert tool in Visual Studio 2017 -MigrationBackup/ - -#Connected Services -Connected\ Services/ - -# Ionide (cross platform F# VS Code tools) working folder -.ionide/ - -# Fody - auto-generated XML schema -FodyWeavers.xsd - -# VS Code files for those working on multiple tools -.vscode/* -!.vscode/settings.json -!.vscode/tasks.json -!.vscode/launch.json -!.vscode/extensions.json -*.code-workspace - -# Local History for Visual Studio Code -.history/ - -# Windows Installer files from build outputs -*.cab -*.msi -*.msix -*.msm -*.msp - -# JetBrains Rider -*.sln.iml diff --git a/src/hidex_interface/App.config b/src/hidex_interface/App.config index 48318db..366b3d2 100644 --- a/src/hidex_interface/App.config +++ b/src/hidex_interface/App.config @@ -1,6 +1,6 @@ - + - + @@ -14,19 +14,9 @@ - + - - - - - - - - - - - - - + \ No newline at end of file diff --git a/src/hidex_interface/Connected Services/HidexService/Arrays.xsd b/src/hidex_interface/Connected Services/HidexService/Arrays.xsd new file mode 100644 index 0000000..c7a5d70 --- /dev/null +++ b/src/hidex_interface/Connected Services/HidexService/Arrays.xsd @@ -0,0 +1,9 @@ + + + + + + + + + \ No newline at end of file diff --git a/src/hidex_interface/Connected Services/HidexService/HidexInterface.HidexService.InstrumentState.datasource b/src/hidex_interface/Connected Services/HidexService/HidexInterface.HidexService.InstrumentState.datasource new file mode 100644 index 0000000..9e5bfb5 --- /dev/null +++ b/src/hidex_interface/Connected Services/HidexService/HidexInterface.HidexService.InstrumentState.datasource @@ -0,0 +1,10 @@ + + + + HidexInterface.HidexService.InstrumentState, Connected Services.HidexService.Reference.cs.dll, Version=0.0.0.0, Culture=neutral, PublicKeyToken=null + \ No newline at end of file diff --git a/src/hidex_interface/Connected Services/HidexService/HidexSense.Automation.xsd b/src/hidex_interface/Connected Services/HidexService/HidexSense.Automation.xsd new file mode 100644 index 0000000..e54557d --- /dev/null +++ b/src/hidex_interface/Connected Services/HidexService/HidexSense.Automation.xsd @@ -0,0 +1,11 @@ + + + + + + + + + + + \ No newline at end of file diff --git a/src/hidex_interface/Connected Services/HidexService/HidexSenseAutomation.wsdl b/src/hidex_interface/Connected Services/HidexService/HidexSenseAutomation.wsdl new file mode 100644 index 0000000..a4edcf4 --- /dev/null +++ b/src/hidex_interface/Connected Services/HidexService/HidexSenseAutomation.wsdl @@ -0,0 +1,169 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + \ No newline at end of file diff --git a/src/hidex_interface/Connected Services/HidexService/HidexSenseAutomation.xsd b/src/hidex_interface/Connected Services/HidexService/HidexSenseAutomation.xsd new file mode 100644 index 0000000..3823ec2 --- /dev/null +++ b/src/hidex_interface/Connected Services/HidexService/HidexSenseAutomation.xsd @@ -0,0 +1,192 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + \ No newline at end of file diff --git a/src/hidex_interface/Connected Services/HidexService/Reference.cs b/src/hidex_interface/Connected Services/HidexService/Reference.cs new file mode 100644 index 0000000..24271ad --- /dev/null +++ b/src/hidex_interface/Connected Services/HidexService/Reference.cs @@ -0,0 +1,340 @@ +//------------------------------------------------------------------------------ +// +// This code was generated by a tool. +// Runtime Version:4.0.30319.42000 +// +// Changes to this file may cause incorrect behavior and will be lost if +// the code is regenerated. +// +//------------------------------------------------------------------------------ + +namespace HidexInterface.HidexService { + using System.Runtime.Serialization; + + + [System.CodeDom.Compiler.GeneratedCodeAttribute("System.Runtime.Serialization", "4.0.0.0")] + [System.Runtime.Serialization.DataContractAttribute(Name="InstrumentState", Namespace="http://schemas.datacontract.org/2004/07/HidexSense.Automation")] + public enum InstrumentState : int { + + [System.Runtime.Serialization.EnumMemberAttribute()] + Unknown = 0, + + [System.Runtime.Serialization.EnumMemberAttribute()] + Idle = 1, + + [System.Runtime.Serialization.EnumMemberAttribute()] + Busy = 2, + } + + [System.CodeDom.Compiler.GeneratedCodeAttribute("System.ServiceModel", "4.0.0.0")] + [System.ServiceModel.ServiceContractAttribute(Namespace="http://AurentiaSolutions/HidexSenseAutomation", ConfigurationName="HidexService.IHidexSenseAutomationService", CallbackContract=typeof(HidexInterface.HidexService.IHidexSenseAutomationServiceCallback), SessionMode=System.ServiceModel.SessionMode.Required)] + public interface IHidexSenseAutomationService { + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + + "Assay", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + + "AssayResponse")] + bool CanRunAssay(string templateName); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + + "Assay", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + + "AssayResponse")] + System.Threading.Tasks.Task CanRunAssayAsync(string templateName); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + + "AssayWithSampleData", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + + "AssayWithSampleDataResponse")] + bool CanRunAssayWithSampleData(string templateName, string sampleDataCsvContent); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + + "AssayWithSampleData", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + + "AssayWithSampleDataResponse")] + System.Threading.Tasks.Task CanRunAssayWithSampleDataAsync(string templateName, string sampleDataCsvContent); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CloseP" + + "lateCarrier", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CloseP" + + "lateCarrierResponse")] + void ClosePlateCarrier(); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CloseP" + + "lateCarrier", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CloseP" + + "lateCarrierResponse")] + System.Threading.Tasks.Task ClosePlateCarrierAsync(); + + [System.ServiceModel.OperationContractAttribute(Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Connec" + + "t", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Connec" + + "tResponse")] + void Connect(bool allowSimulation); + + [System.ServiceModel.OperationContractAttribute(Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Connec" + + "t", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Connec" + + "tResponse")] + System.Threading.Tasks.Task ConnectAsync(bool allowSimulation); + + [System.ServiceModel.OperationContractAttribute(IsTerminating=true, IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Discon" + + "nect", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Discon" + + "nectResponse")] + void Disconnect(); + + [System.ServiceModel.OperationContractAttribute(IsTerminating=true, IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Discon" + + "nect", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Discon" + + "nectResponse")] + System.Threading.Tasks.Task DisconnectAsync(); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAss" + + "ays", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAss" + + "aysResponse")] + string[] GetAssays(); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAss" + + "ays", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAss" + + "aysResponse")] + System.Threading.Tasks.Task GetAssaysAsync(); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAut" + + "oExportPath", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAut" + + "oExportPathResponse")] + string GetAutoExportPath(); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAut" + + "oExportPath", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAut" + + "oExportPathResponse")] + System.Threading.Tasks.Task GetAutoExportPathAsync(); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetInt" + + "erfaceVersion", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetInt" + + "erfaceVersionResponse")] + string GetInterfaceVersion(); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetInt" + + "erfaceVersion", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetInt" + + "erfaceVersionResponse")] + System.Threading.Tasks.Task GetInterfaceVersionAsync(); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetSta" + + "te", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetSta" + + "teResponse")] + HidexInterface.HidexService.InstrumentState GetState(); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetSta" + + "te", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetSta" + + "teResponse")] + System.Threading.Tasks.Task GetStateAsync(); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/OpenPl" + + "ateCarrier", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/OpenPl" + + "ateCarrierResponse")] + void OpenPlateCarrier(); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/OpenPl" + + "ateCarrier", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/OpenPl" + + "ateCarrierResponse")] + System.Threading.Tasks.Task OpenPlateCarrierAsync(); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/SetAut" + + "oExportPath", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/SetAut" + + "oExportPathResponse")] + void SetAutoExportPath(string exportPath); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/SetAut" + + "oExportPath", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/SetAut" + + "oExportPathResponse")] + System.Threading.Tasks.Task SetAutoExportPathAsync(string exportPath); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + + "ssay", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + + "ssayResponse")] + void StartAssay(string templateName); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + + "ssay", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + + "ssayResponse")] + System.Threading.Tasks.Task StartAssayAsync(string templateName); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + + "ssayWithMetadata", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + + "ssayWithMetadataResponse")] + void StartAssayWithMetadata(string templateName, string resultTitle, string resultComment); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + + "ssayWithMetadata", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + + "ssayWithMetadataResponse")] + System.Threading.Tasks.Task StartAssayWithMetadataAsync(string templateName, string resultTitle, string resultComment); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + + "ssayWithSampleData", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + + "ssayWithSampleDataResponse")] + void StartAssayWithSampleData(string templateName, string resultTitle, string resultComment, string sampleDataCsvContent); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + + "ssayWithSampleData", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + + "ssayWithSampleDataResponse")] + System.Threading.Tasks.Task StartAssayWithSampleDataAsync(string templateName, string resultTitle, string resultComment, string sampleDataCsvContent); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StopAs" + + "say", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StopAs" + + "sayResponse")] + void StopAssay(); + + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StopAs" + + "say", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StopAs" + + "sayResponse")] + System.Threading.Tasks.Task StopAssayAsync(); + } + + [System.CodeDom.Compiler.GeneratedCodeAttribute("System.ServiceModel", "4.0.0.0")] + public interface IHidexSenseAutomationServiceCallback { + + [System.ServiceModel.OperationContractAttribute(IsOneWay=true, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/OnStat" + + "eChanged")] + void OnStateChanged(); + } + + [System.CodeDom.Compiler.GeneratedCodeAttribute("System.ServiceModel", "4.0.0.0")] + public interface IHidexSenseAutomationServiceChannel : HidexInterface.HidexService.IHidexSenseAutomationService, System.ServiceModel.IClientChannel { + } + + [System.Diagnostics.DebuggerStepThroughAttribute()] + [System.CodeDom.Compiler.GeneratedCodeAttribute("System.ServiceModel", "4.0.0.0")] + public partial class HidexSenseAutomationServiceClient : System.ServiceModel.DuplexClientBase, HidexInterface.HidexService.IHidexSenseAutomationService { + + public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance) : + base(callbackInstance) { + } + + public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance, string endpointConfigurationName) : + base(callbackInstance, endpointConfigurationName) { + } + + public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance, string endpointConfigurationName, string remoteAddress) : + base(callbackInstance, endpointConfigurationName, remoteAddress) { + } + + public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance, string endpointConfigurationName, System.ServiceModel.EndpointAddress remoteAddress) : + base(callbackInstance, endpointConfigurationName, remoteAddress) { + } + + public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance, System.ServiceModel.Channels.Binding binding, System.ServiceModel.EndpointAddress remoteAddress) : + base(callbackInstance, binding, remoteAddress) { + } + + public bool CanRunAssay(string templateName) { + return base.Channel.CanRunAssay(templateName); + } + + public System.Threading.Tasks.Task CanRunAssayAsync(string templateName) { + return base.Channel.CanRunAssayAsync(templateName); + } + + public bool CanRunAssayWithSampleData(string templateName, string sampleDataCsvContent) { + return base.Channel.CanRunAssayWithSampleData(templateName, sampleDataCsvContent); + } + + public System.Threading.Tasks.Task CanRunAssayWithSampleDataAsync(string templateName, string sampleDataCsvContent) { + return base.Channel.CanRunAssayWithSampleDataAsync(templateName, sampleDataCsvContent); + } + + public void ClosePlateCarrier() { + base.Channel.ClosePlateCarrier(); + } + + public System.Threading.Tasks.Task ClosePlateCarrierAsync() { + return base.Channel.ClosePlateCarrierAsync(); + } + + public void Connect(bool allowSimulation) { + base.Channel.Connect(allowSimulation); + } + + public System.Threading.Tasks.Task ConnectAsync(bool allowSimulation) { + return base.Channel.ConnectAsync(allowSimulation); + } + + public void Disconnect() { + base.Channel.Disconnect(); + } + + public System.Threading.Tasks.Task DisconnectAsync() { + return base.Channel.DisconnectAsync(); + } + + public string[] GetAssays() { + return base.Channel.GetAssays(); + } + + public System.Threading.Tasks.Task GetAssaysAsync() { + return base.Channel.GetAssaysAsync(); + } + + public string GetAutoExportPath() { + return base.Channel.GetAutoExportPath(); + } + + public System.Threading.Tasks.Task GetAutoExportPathAsync() { + return base.Channel.GetAutoExportPathAsync(); + } + + public string GetInterfaceVersion() { + return base.Channel.GetInterfaceVersion(); + } + + public System.Threading.Tasks.Task GetInterfaceVersionAsync() { + return base.Channel.GetInterfaceVersionAsync(); + } + + public HidexInterface.HidexService.InstrumentState GetState() { + return base.Channel.GetState(); + } + + public System.Threading.Tasks.Task GetStateAsync() { + return base.Channel.GetStateAsync(); + } + + public void OpenPlateCarrier() { + base.Channel.OpenPlateCarrier(); + } + + public System.Threading.Tasks.Task OpenPlateCarrierAsync() { + return base.Channel.OpenPlateCarrierAsync(); + } + + public void SetAutoExportPath(string exportPath) { + base.Channel.SetAutoExportPath(exportPath); + } + + public System.Threading.Tasks.Task SetAutoExportPathAsync(string exportPath) { + return base.Channel.SetAutoExportPathAsync(exportPath); + } + + public void StartAssay(string templateName) { + base.Channel.StartAssay(templateName); + } + + public System.Threading.Tasks.Task StartAssayAsync(string templateName) { + return base.Channel.StartAssayAsync(templateName); + } + + public void StartAssayWithMetadata(string templateName, string resultTitle, string resultComment) { + base.Channel.StartAssayWithMetadata(templateName, resultTitle, resultComment); + } + + public System.Threading.Tasks.Task StartAssayWithMetadataAsync(string templateName, string resultTitle, string resultComment) { + return base.Channel.StartAssayWithMetadataAsync(templateName, resultTitle, resultComment); + } + + public void StartAssayWithSampleData(string templateName, string resultTitle, string resultComment, string sampleDataCsvContent) { + base.Channel.StartAssayWithSampleData(templateName, resultTitle, resultComment, sampleDataCsvContent); + } + + public System.Threading.Tasks.Task StartAssayWithSampleDataAsync(string templateName, string resultTitle, string resultComment, string sampleDataCsvContent) { + return base.Channel.StartAssayWithSampleDataAsync(templateName, resultTitle, resultComment, sampleDataCsvContent); + } + + public void StopAssay() { + base.Channel.StopAssay(); + } + + public System.Threading.Tasks.Task StopAssayAsync() { + return base.Channel.StopAssayAsync(); + } + } +} diff --git a/src/hidex_interface/Connected Services/HidexService/Reference.svcmap b/src/hidex_interface/Connected Services/HidexService/Reference.svcmap new file mode 100644 index 0000000..a44b677 --- /dev/null +++ b/src/hidex_interface/Connected Services/HidexService/Reference.svcmap @@ -0,0 +1,36 @@ + + + + false + true + true + + false + false + false + + + true + Auto + true + true + + + + + + + + + + + + + + + + + + + + \ No newline at end of file diff --git a/src/hidex_interface/Connected Services/HidexService/configuration.svcinfo b/src/hidex_interface/Connected Services/HidexService/configuration.svcinfo new file mode 100644 index 0000000..23b4060 --- /dev/null +++ b/src/hidex_interface/Connected Services/HidexService/configuration.svcinfo @@ -0,0 +1,10 @@ + + + + + + + + + + \ No newline at end of file diff --git a/src/hidex_interface/Connected Services/HidexService/configuration91.svcinfo b/src/hidex_interface/Connected Services/HidexService/configuration91.svcinfo new file mode 100644 index 0000000..2530d4f --- /dev/null +++ b/src/hidex_interface/Connected Services/HidexService/configuration91.svcinfo @@ -0,0 +1,231 @@ + + + + + + + CustomBinding_IHidexSenseAutomationService + + + + + + + + + + + + + + + System.ServiceModel.Configuration.ReliableSessionElement + + + 00:00:00.2000000 + + + True + + + 01:00:00 + + + 4 + + + 8 + + + 8 + + + True + + + Default + + + System.ServiceModel.Configuration.BinaryMessageEncodingElement + + + 64 + + + 16 + + + 2048 + + + System.ServiceModel.Configuration.XmlDictionaryReaderQuotasElement + + + 0 + + + 0 + + + 0 + + + 0 + + + 0 + + + None + + + System.ServiceModel.Configuration.NamedPipeTransportElement + + + False + + + 524288 + + + 65536 + + + 8192 + + + StrongWildcard + + + 00:00:30 + + + 65536 + + + 0 + + + 00:00:00.2000000 + + + 0 + + + Buffered + + + System.ServiceModel.Configuration.NamedPipeConnectionPoolSettingsElement + + + default + + + 00:02:00 + + + 10 + + + System.ServiceModel.Configuration.NamedPipeSettingsElement + + + System.ServiceModel.Configuration.ApplicationContainerSettingsElement + + + + + + -1 + + + + + + + + + net.pipe://localhost/HidexSenseAutomation/ + + + + + + customBinding + + + CustomBinding_IHidexSenseAutomationService + + + HidexService.IHidexSenseAutomationService + + + System.ServiceModel.Configuration.AddressHeaderCollectionElement + + + <Header /> + + + System.ServiceModel.Configuration.IdentityElement + + + System.ServiceModel.Configuration.UserPrincipalNameElement + + + + + + System.ServiceModel.Configuration.ServicePrincipalNameElement + + + + + + System.ServiceModel.Configuration.DnsElement + + + + + + System.ServiceModel.Configuration.RsaElement + + + + + + System.ServiceModel.Configuration.CertificateElement + + + + + + System.ServiceModel.Configuration.CertificateReferenceElement + + + My + + + LocalMachine + + + FindBySubjectDistinguishedName + + + + + + False + + + CustomBinding_IHidexSenseAutomationService + + + + + + + + + + + \ No newline at end of file diff --git a/src/hidex_interface/Connected Services/HidexService/service.wsdl b/src/hidex_interface/Connected Services/HidexService/service.wsdl new file mode 100644 index 0000000..e90d9f6 --- /dev/null +++ b/src/hidex_interface/Connected Services/HidexService/service.wsdl @@ -0,0 +1,170 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + net.pipe://localhost/HidexSenseAutomation/ + + + + \ No newline at end of file diff --git a/src/hidex_interface/Connected Services/HidexService/service.xsd b/src/hidex_interface/Connected Services/HidexService/service.xsd new file mode 100644 index 0000000..b4d5ff0 --- /dev/null +++ b/src/hidex_interface/Connected Services/HidexService/service.xsd @@ -0,0 +1,42 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + \ No newline at end of file diff --git a/src/hidex_interface/GlobalSuppressions.cs b/src/hidex_interface/GlobalSuppressions.cs deleted file mode 100644 index 0e9a8cd..0000000 --- a/src/hidex_interface/GlobalSuppressions.cs +++ /dev/null @@ -1,8 +0,0 @@ -// This file is used by Code Analysis to maintain SuppressMessage -// attributes that are applied to this project. -// Project-level suppressions either have no target or are given -// a specific target and scoped to a namespace, type, member, etc. - -using System.Diagnostics.CodeAnalysis; - -[assembly: SuppressMessage("CodeQuality", "IDE0051:Remove unused private members", Justification = "", Scope = "member", Target = "~M:HidexNode.Program.OnExecute")] diff --git a/src/hidex_interface/HidexInterface.cs b/src/hidex_interface/HidexInterface.cs new file mode 100644 index 0000000..923d8fc --- /dev/null +++ b/src/hidex_interface/HidexInterface.cs @@ -0,0 +1,13 @@ +using System; +using HidexInterface.HidexService; + +namespace HidexInterface +{ + public class Callback_Wrapper : IHidexSenseAutomationServiceCallback + { + public void OnStateChanged() + { + Console.WriteLine("State changed in HidexSenseAutomationService."); + } + } +} diff --git a/src/hidex_interface/HidexInterface.csproj b/src/hidex_interface/HidexInterface.csproj new file mode 100644 index 0000000..9bf7d68 --- /dev/null +++ b/src/hidex_interface/HidexInterface.csproj @@ -0,0 +1,92 @@ + + + + + Debug + AnyCPU + {BA8378C6-DDAD-473E-B4C2-27551A1996AA} + Library + HidexInterface + HidexInterface + v4.7.2 + 512 + true + true + + + AnyCPU + true + full + false + bin\Debug\ + DEBUG;TRACE + prompt + 4 + false + + + AnyCPU + pdbonly + true + bin\Release\ + TRACE + prompt + 4 + + + + + + + + Designer + + + Reference.svcmap + + + Designer + + + + Designer + + + + Designer + + + + + + + + + + + + + + + + + + + + + + + WCF Proxy Generator + Reference.cs + + + + + True + True + Reference.svcmap + + + + + \ No newline at end of file diff --git a/src/hidex_interface/HidexNode.sln b/src/hidex_interface/HidexInterface.sln similarity index 56% rename from src/hidex_interface/HidexNode.sln rename to src/hidex_interface/HidexInterface.sln index 7990b18..f52917e 100644 --- a/src/hidex_interface/HidexNode.sln +++ b/src/hidex_interface/HidexInterface.sln @@ -1,9 +1,9 @@  Microsoft Visual Studio Solution File, Format Version 12.00 # Visual Studio Version 17 -VisualStudioVersion = 17.6.33829.357 +VisualStudioVersion = 17.6.33717.318 MinimumVisualStudioVersion = 10.0.40219.1 -Project("{FAE04EC0-301F-11D3-BF4B-00C04F79EFBC}") = "HidexNode", "HidexNode.csproj", "{3D5637E3-94E5-4641-98FB-0FD8178CE2B5}" +Project("{FAE04EC0-301F-11D3-BF4B-00C04F79EFBC}") = "HidexInterface", "HidexInterface.csproj", "{BA8378C6-DDAD-473E-B4C2-27551A1996AA}" EndProject Global GlobalSection(SolutionConfigurationPlatforms) = preSolution @@ -11,15 +11,15 @@ Global Release|Any CPU = Release|Any CPU EndGlobalSection GlobalSection(ProjectConfigurationPlatforms) = postSolution - {3D5637E3-94E5-4641-98FB-0FD8178CE2B5}.Debug|Any CPU.ActiveCfg = Debug|Any CPU - {3D5637E3-94E5-4641-98FB-0FD8178CE2B5}.Debug|Any CPU.Build.0 = Debug|Any CPU - {3D5637E3-94E5-4641-98FB-0FD8178CE2B5}.Release|Any CPU.ActiveCfg = Release|Any CPU - {3D5637E3-94E5-4641-98FB-0FD8178CE2B5}.Release|Any CPU.Build.0 = Release|Any CPU + {BA8378C6-DDAD-473E-B4C2-27551A1996AA}.Debug|Any CPU.ActiveCfg = Debug|Any CPU + {BA8378C6-DDAD-473E-B4C2-27551A1996AA}.Debug|Any CPU.Build.0 = Debug|Any CPU + {BA8378C6-DDAD-473E-B4C2-27551A1996AA}.Release|Any CPU.ActiveCfg = Release|Any CPU + {BA8378C6-DDAD-473E-B4C2-27551A1996AA}.Release|Any CPU.Build.0 = Release|Any CPU EndGlobalSection GlobalSection(SolutionProperties) = preSolution HideSolutionNode = FALSE EndGlobalSection GlobalSection(ExtensibilityGlobals) = postSolution - SolutionGuid = {D96A9DB8-4E3E-42FC-BB0A-A8F18C5940B8} + SolutionGuid = {9410CE9C-F814-4659-A63D-36EE372D9FD3} EndGlobalSection EndGlobal diff --git a/src/hidex_interface/HidexNode.cs b/src/hidex_interface/HidexNode.cs deleted file mode 100644 index f0f5dc5..0000000 --- a/src/hidex_interface/HidexNode.cs +++ /dev/null @@ -1,14 +0,0 @@ -using HidexNode.HidexAutomation; -using System; - -namespace HidexNode -{ - - public class Callback_Wrapper : IHidexSenseAutomationServiceCallback - { - public void OnStateChanged() - { - Console.WriteLine("Initialized!"); - } - } -} diff --git 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{1C565858-F302-471E-B409-F180AA4ABEC6} - 1 - 0 - 0 - tlbimp - False - True - - - {58FBCF7C-E7A9-467C-80B3-FC65E8FCCA08} - 1 - 0 - 0 - tlbimp - False - True - - - - - False - Microsoft .NET Framework 4.7.2 %28x86 and x64%29 - true - - - False - .NET Framework 3.5 SP1 - false - - - - diff --git a/src/hidex_interface/HidexRestServer.cs b/src/hidex_interface/HidexRestServer.cs deleted file mode 100644 index 4101179..0000000 --- a/src/hidex_interface/HidexRestServer.cs +++ /dev/null @@ -1,158 +0,0 @@ -using Grapevine; -using HidexNode.HidexAutomation; -using Newtonsoft.Json; -using System; -using System.Collections.Generic; -using System.IO; -using System.Linq; -using System.Threading; -using System.Threading.Tasks; - -namespace HidexNode -{ - [RestResource] - public class HidexRestServer - { - private readonly IRestServer _server; - - public HidexRestServer(IRestServer server) - { - _server = server; - } - - [RestRoute("Get", "/state")] - public async Task State(IHttpContext context) - { - string state = _server.Locals.GetAs("state"); - Dictionary response = new Dictionary - { - ["State"] = state - }; - Console.WriteLine(state); - await context.Response.SendResponseAsync(JsonConvert.SerializeObject(response)); - } - - [RestRoute("Get", "/about")] - public async Task About(IHttpContext context) - { - // TODO - await context.Response.SendResponseAsync(@" -{ - ""name"":""Hidex"", - ""model"":""Hidex Sense Microplate Reader"", - ""interface"":""wei_rest_node"", - ""version"":""0.2.0"", - ""description"":""Module for automating the hidex platereader."", - ""actions"": [ - {""name"":""open"",""args"":[],""files"":[]}, - {""name"":""close"",""args"":[],""files"":[]}, - {""name"":""run_assay"",""args"":[{""name"":""assay_name"",""type"":""str"",""default"":null,""required"":true,""description"":""Name of the assay to run""}],""files"":[]} - ], - ""resource_pools"":[] -}" - ); - } - - [RestRoute("Get", "/resources")] - public async Task Resources(IHttpContext context) - { - // TODO - await context.Response.SendResponseAsync("resources"); - } - - [RestRoute("Post", "/action")] - public async Task Action(IHttpContext context) - { - string action_handle = context.Request.QueryString["action_handle"]; - string action_vars = context.Request.QueryString["action_vars"]; - Dictionary args = JsonConvert.DeserializeObject>(action_vars); - var result = UtilityFunctions.action_response(); - string state = _server.Locals.GetAs("state"); - HidexSenseAutomationServiceClient client = _server.Locals.GetAs("client"); - - if (state == ModuleStatus.BUSY) - { - result = UtilityFunctions.action_response(StepStatus.FAILED, "", "Module is Busy"); - await context.Response.SendResponseAsync(JsonConvert.SerializeObject(result)); - } - try - { - _server.Locals.TryUpdate("state", ModuleStatus.BUSY, _server.Locals.GetAs("state")); - switch (action_handle) - { - case "open": - Console.WriteLine("Action Started: open"); - client.OpenPlateCarrier(); - while (client.GetState() == InstrumentState.Busy) ; - result = UtilityFunctions.action_response(StepStatus.SUCCEEDED, "Opened Hidex", ""); - Console.WriteLine("Action Finished: open"); - break; - case "run_assay": - Console.WriteLine("Action Started: run_assay"); - string output_path = _server.Locals.GetAs("output_path"); - DirectoryInfo output_dir = new DirectoryInfo(output_path); - string previous_filename = _server.Locals.GetAs("previous_filename"); - client.SetAutoExportPath(output_path); - client.StartAssay(args["assay_name"]); - while (client.GetState() == InstrumentState.Busy) ; - string filename = output_dir.GetFiles().OrderByDescending(f => f.LastWriteTime).First().FullName; - string wait_until_complete_string = "true"; - if (args.TryGetValue("wait_until_complete", out wait_until_complete_string) && wait_until_complete_string.ToLower() != "true") - { - result = UtilityFunctions.action_response(StepStatus.SUCCEEDED, "Ran Assay", ""); - } - else - { - while (filename == previous_filename) - { - filename = output_dir.GetFiles().OrderByDescending(f => f.LastWriteTime).First().FullName; - } - _server.Locals.TryUpdate("previous_filename", filename, previous_filename); - context.Response.Headers.Add("x-wei-action_response", StepStatus.SUCCEEDED); - context.Response.Headers.Add("x-wei-action_log", ""); - context.Response.Headers.Add("x-wei-action_msg", filename); - FileStream fs; - while (true) - { - try - { - fs = File.OpenRead(filename); - BinaryReader binaryReader = new BinaryReader(fs); - var Excelbytes = binaryReader.ReadBytes((int)fs.Length); - _server.Locals.TryUpdate("state", ModuleStatus.IDLE, _server.Locals.GetAs("state")); - Console.WriteLine("Action Finished: run_assay"); - await context.Response.SendResponseAsync(Excelbytes); - return; - } - catch (IOException) - { - Thread.Sleep(1000); - } - } - } - break; - case "close": - Console.WriteLine("Action Started: close"); - client.ClosePlateCarrier(); - while (client.GetState() == InstrumentState.Busy) ; - result = UtilityFunctions.action_response(StepStatus.SUCCEEDED, "Closed Hidex", ""); - Console.WriteLine("Action Finished: close"); - break; - default: - Console.WriteLine("Unknown action: " + action_handle); - result = UtilityFunctions.action_response(StepStatus.FAILED, "", "Unknown action: " + action_handle); - break; - } - _server.Locals.TryUpdate("state", ModuleStatus.IDLE, _server.Locals.GetAs("state")); - } - catch (Exception ex) - { - _server.Locals.TryUpdate("state", ModuleStatus.ERROR, _server.Locals.GetAs("state")); - Console.WriteLine(ex.ToString()); - result = UtilityFunctions.action_response(StepStatus.FAILED, "", "Step failed: " + ex.ToString()); - } - - await context.Response.SendResponseAsync(JsonConvert.SerializeObject(result)); - } - } -} diff --git a/src/hidex_interface/packages.config b/src/hidex_interface/packages.config deleted file mode 100644 index 0589857..0000000 --- a/src/hidex_interface/packages.config +++ /dev/null @@ -1,40 +0,0 @@ - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - diff --git a/src/hidex_interface/utils.cs b/src/hidex_interface/utils.cs deleted file mode 100644 index 09942ab..0000000 --- a/src/hidex_interface/utils.cs +++ /dev/null @@ -1,37 +0,0 @@ -using System.Collections.Generic; - -namespace HidexNode -{ - public static class ModuleStatus - { - public const string - INIT = "INIT", - IDLE = "IDLE", - BUSY = "BUSY", - ERROR = "ERROR", - UNKNOWN = "UNKNOWN"; - } - - public static class StepStatus - { - public const string - IDLE = "idle", - RUNNING = "running", - SUCCEEDED = "succeeded", - FAILED = "failed"; - } - - public static class UtilityFunctions - { - public static Dictionary action_response(string action_response = StepStatus.IDLE, string action_msg = "", string action_log = "") - { - Dictionary response = new Dictionary(); - response["action_response"] = action_response; - response["action_msg"] = action_msg; - response["action_log"] = action_log; - return response; - } - - } - -} diff --git a/src/hidex_rest_node.py b/src/hidex_rest_node.py index 4e5ca96..0a396ea 100644 --- a/src/hidex_rest_node.py +++ b/src/hidex_rest_node.py @@ -2,101 +2,87 @@ REST-based node that interfaces with WEI and provides various fake actions for testing purposes """ -import glob import os import time -from typing import Optional +from pathlib import Path, WindowsPath +from typing import Annotated, Optional import clr from madsci.client.resource_client import ResourceClient -from madsci.common.types.action_types import ActionFailed, ActionSucceeded +from madsci.common.types.action_types import ActionCancelled, ActionFailed, ActionResult, ActionSucceeded from madsci.common.types.admin_command_types import AdminCommandResponse from madsci.common.types.auth_types import OwnershipInfo from madsci.common.types.node_types import RestNodeConfig from madsci.node_module.helpers import action from madsci.node_module.rest_node_module import RestNode -from typing_extensions import Annotated -clr.AddReference("C:\\Users\\rpl\\\\source\\repos\\hidex_module\\src\\hidex_interface\\bin\\Debug\\HidexNode.dll") -# ruff: noqa: E402 -import HidexNode as HN -import HidexNode.HidexAutomation as HA -import System -import System.ServiceModel as SM -import System.ServiceModel.Channels as SMC +clr.AddReference(str(WindowsPath(__file__).parent / "hidex_interface" / "bin" / "Debug" / "HidexInterface.dll")) +import HidexInterface # type: ignore # noqa: E402, I001 +import HidexInterface.HidexService as HidexService # type: ignore # noqa: E402, PLR0402 +import System # type: ignore # noqa: E402 +from System import ServiceModel # type: ignore # noqa: E402 +from System.ServiceModel import Channels # type: ignore # noqa: E402 class HidexNodeConfig(RestNodeConfig): """Configuration for the Hidex REST node""" - output_path: Optional[str] = "C:\\Users\\rpl\\Desktop\\results" + output_path: Optional[str] = "C:\\Users\\svcaibio\\Desktop\\results" + """Path where the Hidex saves assay results""" class HidexNode(RestNode): """Hidex Node class for managing the Hidex plate reader""" - hidex_interface: HA.HidexSenseAutomationServiceClient = None + hidex_interface: HidexService.HidexSenseAutomationServiceClient = None + """Interface to the Hidex plate reader service""" config_model = HidexNodeConfig + """Configuration model used by the Hidex Node""" + config: HidexNodeConfig = HidexNodeConfig() + """Configuration for the Hidex Node""" + module_version = "1.1.0" + """Version of the Hidex Node module""" def startup_handler(self) -> None: - """Called to (re)initialize the node. Should be used to open connections to devices or initialize any other resources.""" - try: - if self.config.resource_server_url: - self.resource_client = ResourceClient(self.config.resource_server_url) - self.resource_owner = OwnershipInfo(node_id=self.node_definition.node_id) - else: - self.resource_client = None - self.logger.log("Node initializing...") - - sbe = SMC.ReliableSessionBindingElement() - binding = SMC.CustomBinding() - binding.Elements.Add(sbe) - binding.Elements.Add(SMC.BinaryMessageEncodingBindingElement()) - binding.Elements.Add(SMC.NamedPipeTransportBindingElement()) - self.hidex_interface = HA.HidexSenseAutomationServiceClient( - SM.InstanceContext(HN.Callback_Wrapper()), - binding, - SM.EndpointAddress(System.Uri("net.pipe://localhost/HidexSenseAutomation/")), - ) - self.hidex_interface.Connect(False) - state = self.hidex_interface.GetState() - print(self.hidex_interface.GetState() == state) - while self.hidex_interface.GetState() == state: - print(self.hidex_interface.GetState()) - time.sleep(0.5) - print(self.hidex_interface.GetState()) - self.cancelled = False - - except Exception as err: - self.logger.log_error(f"Error starting the Hidex Node: {err}") - self.startup_has_run = False - else: - self.startup_has_run = True - self.logger.log("Hidex node initialized!") - - def shutdown_handler(self): + """Called to (re)initialize the node. Opens a connection to the Hidex.""" + + sbe = Channels.ReliableSessionBindingElement() + binding = Channels.CustomBinding() + binding.Elements.Add(sbe) + binding.Elements.Add(Channels.BinaryMessageEncodingBindingElement()) + binding.Elements.Add(Channels.NamedPipeTransportBindingElement()) + self.hidex_interface = HidexService.HidexSenseAutomationServiceClient( + ServiceModel.InstanceContext(HidexInterface.Callback_Wrapper()), + binding, + ServiceModel.EndpointAddress(System.Uri("net.pipe://localhost/HidexSenseAutomation/")), + ) + self.hidex_interface.Connect(False) + state = self.hidex_interface.GetState() + self.logger.log_debug(self.hidex_interface.GetState() == state) + while self.hidex_interface.GetState() == state: + self.logger.log_debug(self.hidex_interface.GetState()) + time.sleep(0.5) + self.logger.log_debug(self.hidex_interface.GetState()) + self.cancelled = False + self.logger.log("Hidex node initialized!") + + def shutdown_handler(self) -> None: """Called to shutdown the node. Should be used to close connections to devices or release any other resources.""" - try: - self.logger.log("Shutting down") - self.hidex_interface.Disconnect() - self.shutdown_has_run = True - del self.ur_interface - self.hidex_interface = None - self.logger.log("Hidex node shutdown successfully!") - except Exception as err: - self.logger.log_error(f"Error shutting down the Hidex Node: {err}") + self.logger.log("Shutting down") + self.hidex_interface.Disconnect() + self.hidex_interface = None + self.logger.log("Hidex node shutdown successfully!") def state_handler(self) -> None: """Handles the state of the Hidex node""" - if not self.hidex_interface: - self.logger.log_error("Hidex interface is not initialized") + if not self.hidex_interface or self.node_status.initializing: return - if self.hidex_interface.GetState() == HA.InstrumentState.Idle: + if self.hidex_interface.GetState() == HidexService.InstrumentState.Idle: self.node_state = { "hidex_status_code": "READY", } - elif self.hidex_interface.GetState() == HA.InstrumentState.Busy: + elif self.hidex_interface.GetState() == HidexService.InstrumentState.Busy: self.node_state = { "hidex_status_code": "BUSY", } @@ -108,25 +94,17 @@ def state_handler(self) -> None: self.logger.info("UNKNOWN") @action(name="open", description="opens plate carrier") - def open(self): + def open(self) -> ActionResult: """Opens the plate carrier""" - try: - self.hidex_interface.OpenPlateCarrier() - time.sleep(1) - except Exception as e: - self.logger.log_error(f"Error opening plate carrier: {e}") - return ActionFailed(errors=e) + self.hidex_interface.OpenPlateCarrier() + time.sleep(3) return ActionSucceeded() @action(name="close", description="closes plate carrier") - def close(self): + def close(self) -> ActionResult: """Closes the plate carrier""" - try: - self.hidex_interface.ClosePlateCarrier() - time.sleep(1) - except Exception as e: - self.logger.log_error(f"Error closing plate carrier: {e}") - return ActionFailed(errors=e) + self.hidex_interface.ClosePlateCarrier() + time.sleep(5) return ActionSucceeded() @action(name="run_assay", description="runs assay on the current sample") @@ -134,28 +112,29 @@ def run_assay( self, assay_name: Annotated[str, "assay to run"], wait_for_result: Annotated[bool, "Whether we should wait for the results of the assay before returning"] = True, - ): + ) -> ActionResult: """Runs assay on the current sample""" - list_of_files = glob.glob(self.config.output_path + "\\*") # * means all if need specific format then *.csv - latest_file = max(list_of_files, key=os.path.getctime) - prev_file = latest_file - self.logger.log_info(latest_file) + self.cancelled = False + pre_submit_time = time.time() self.hidex_interface.SetAutoExportPath(self.config.output_path) self.hidex_interface.StartAssay(assay_name) - while self.hidex_interface.GetState() == HA.InstrumentState.Busy: + while self.hidex_interface.GetState() == HidexService.InstrumentState.Busy: pass - if bool(wait_for_result) and not self.cancelled: - while latest_file == prev_file: - list_of_files = glob.glob( - self.config.output_path + "\\*" - ) # * means all if need specific format then *.csv - latest_file = max(list_of_files, key=os.path.getctime) - time.sleep(0.5) + if bool(wait_for_result): + while not self.cancelled: + time.sleep(1) + files = list(Path(self.config.output_path).glob("*")) + if files: + latest_file = max(files, key=os.path.getctime) + if latest_file.is_file() and latest_file.stat().st_birthtime > pre_submit_time: + break + else: + self.logger.log_debug("Assay cancelled before completion") + return ActionCancelled(errors=["Assay cancelled before completion"]) return ActionSucceeded(files={"assay_result": latest_file}) - else: - self.cancelled = False - return ActionSucceeded() + self.cancelled = False + return ActionSucceeded() def cancel(self) -> AdminCommandResponse: """Cancels the current assay""" From 0e00cbe8118b9eb1ddf5e1a59974aca8f3b3d920 Mon Sep 17 00:00:00 2001 From: "Ryan D. Lewis" Date: Thu, 8 Jan 2026 14:33:57 -0600 Subject: [PATCH 12/14] current state in 446 on MADSci 0.6 --- .pre-commit-config.yaml | 2 +- README.md | 2 - .../hidex.info.yaml => default.node.info.yaml | 110 +++++++++--- default.node.yaml | 7 + definitions/hidex_howard.info.yaml | 40 +++-- example.env | 2 +- pdm.lock | 161 ++++++++++++++---- pyproject.toml | 6 +- run_hidex.bat | 4 + src/hidex_interface/App.config | 4 +- .../HidexService/Arrays.xsd | 2 +- ...ce.HidexService.InstrumentState.datasource | 8 +- .../HidexService/HidexSense.Automation.xsd | 2 +- .../HidexService/HidexSenseAutomation.wsdl | 2 +- .../HidexService/HidexSenseAutomation.xsd | 2 +- .../HidexService/Reference.cs | 160 ++++++++--------- .../HidexService/Reference.svcmap | 2 +- .../HidexService/configuration.svcinfo | 2 +- .../HidexService/configuration91.svcinfo | 2 +- .../HidexService/service.wsdl | 2 +- .../HidexService/service.xsd | 2 +- src/hidex_interface/HidexInterface.csproj | 2 +- src/hidex_rest_node.py | 71 ++++++-- 23 files changed, 411 insertions(+), 186 deletions(-) rename definitions/hidex.info.yaml => default.node.info.yaml (51%) create mode 100644 default.node.yaml create mode 100644 run_hidex.bat diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index ecdeb6b..3fe2351 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -16,7 +16,7 @@ repos: - id: nbstripout - repo: https://github.com/astral-sh/ruff-pre-commit # Ruff version. - rev: v0.14.3 + rev: v0.14.5 hooks: # Run the linter. - id: ruff diff --git a/README.md b/README.md index 5e90e52..25777d0 100644 --- a/README.md +++ b/README.md @@ -38,5 +38,3 @@ This package is Windows-only. ``` pdm run python src/hidex_rest_node.py ``` - - diff --git a/definitions/hidex.info.yaml b/default.node.info.yaml similarity index 51% rename from definitions/hidex.info.yaml rename to default.node.info.yaml index 317a342..7917a27 100644 --- a/definitions/hidex.info.yaml +++ b/default.node.info.yaml @@ -1,14 +1,15 @@ -node_name: hidex -node_id: 01JWHD6HPNXMCKNHZK53VYVNQH -node_description: A rest node for Hidex Module +node_name: default.node +node_id: 01KA2A8X6YVXP01W9HY8QESN60 +node_description: null node_type: device -module_name: hidex_module +module_name: hidex_node module_version: 0.0.1 capabilities: get_info: true get_state: true get_status: true send_action: true + get_action_status: true get_action_result: true get_action_history: true action_files: true @@ -26,29 +27,37 @@ node_url: null actions: open: name: open - description: opens plate carrier + description: Open the plate carrier args: {} locations: {} files: {} results: {} - blocking: false + blocking: true asynchronous: true + accepts_var_args: false + accepts_var_kwargs: false + var_args_schema: null + var_kwargs_schema: null close: name: close - description: closes plate carrier + description: Closes the plate carrier args: {} locations: {} files: {} results: {} - blocking: false + blocking: true asynchronous: true + accepts_var_args: false + accepts_var_kwargs: false + var_args_schema: null + var_kwargs_schema: null run_assay: name: run_assay - description: runs assay on the current sample + description: Runs the specificed assay on the current sample args: assay_name: name: assay_name - description: assay to run + description: Name of the assay to run argument_type: str required: true default: null @@ -60,18 +69,33 @@ actions: default: true locations: {} files: {} - results: {} - blocking: false + results: + file: + result_label: file + description: null + result_type: file + blocking: true asynchronous: true + accepts_var_args: false + accepts_var_kwargs: false + var_args_schema: null + var_kwargs_schema: null config: - node_definition: definitions/hidex.node.yaml + node_definition: default.node.yaml node_info_path: null update_node_files: true status_update_interval: 2.0 state_update_interval: 2.0 - node_url: http://127.0.0.1:2000/ - uvicorn_kwargs: {} - output_path: C:\Users\svcaibio\Desktop\results + node_url: http://suestorm.cels.anl.gov:3000/ + uvicorn_kwargs: + limit_concurrency: 10 + enable_rate_limiting: true + rate_limit_requests: 100 + rate_limit_window: 60 + rate_limit_short_requests: 50 + rate_limit_short_window: 1 + rate_limit_cleanup_interval: 300 + output_path: C:\Users\RPL\Documents\HidexData config_schema: description: Configuration for the Hidex REST node properties: @@ -127,14 +151,60 @@ config_schema: type: string uvicorn_kwargs: additionalProperties: true - description: Configuration for the Uvicorn server that runs the REST API. + description: Configuration for the Uvicorn server that runs the REST API. By + default, sets limit_concurrency=10 to protect against connection exhaustion + attacks. title: Uvicorn Configuration type: object - output_path: + enable_rate_limiting: + default: true + description: Enable rate limiting middleware for the REST API. + title: Enable Rate Limiting + type: boolean + rate_limit_requests: + default: 100 + description: Maximum number of requests allowed per long time window (only used + if enable_rate_limiting is True). + minimum: 1 + title: Rate Limit Requests + type: integer + rate_limit_window: + default: 60 + description: Long time window in seconds for rate limiting (only used if enable_rate_limiting + is True). + minimum: 1 + title: Rate Limit Window + type: integer + rate_limit_short_requests: anyOf: - - type: string + - minimum: 1 + type: integer - type: 'null' - default: C:\Users\svcaibio\Desktop\results + default: 50 + description: Maximum number of requests allowed per short time window for burst + protection (only used if enable_rate_limiting is True). If None, short window + limiting is disabled. + title: Rate Limit Short Requests + rate_limit_short_window: + anyOf: + - minimum: 1 + type: integer + - type: 'null' + default: 1 + description: Short time window for burst protection in seconds (only used if + enable_rate_limiting is True). If None, short window limiting is disabled. + title: Rate Limit Short Window + rate_limit_cleanup_interval: + default: 300 + description: Interval in seconds between cleanup operations to prevent memory + leaks (only used if enable_rate_limiting is True). + minimum: 1 + title: Rate Limit Cleanup Interval + type: integer + output_path: + default: C:\Users\RPL\Desktop\results + format: path title: Output Path + type: string title: HidexNodeConfig type: object diff --git a/default.node.yaml b/default.node.yaml new file mode 100644 index 0000000..37ca73d --- /dev/null +++ b/default.node.yaml @@ -0,0 +1,7 @@ +node_name: default.node +node_id: 01KA2A8X6YVXP01W9HY8QESN60 +node_description: null +node_type: device +module_name: hidex_node +module_version: 0.0.1 +capabilities: null diff --git a/definitions/hidex_howard.info.yaml b/definitions/hidex_howard.info.yaml index 4cb8ba5..98935d9 100644 --- a/definitions/hidex_howard.info.yaml +++ b/definitions/hidex_howard.info.yaml @@ -10,6 +10,7 @@ capabilities: get_state: true get_status: true send_action: true + get_action_status: true get_action_result: true get_action_history: true action_files: true @@ -27,29 +28,37 @@ node_url: null actions: open: name: open - description: opens plate carrier + description: Open the plate carrier args: {} locations: {} files: {} results: {} blocking: false asynchronous: true + accepts_var_args: false + accepts_var_kwargs: false + var_args_schema: null + var_kwargs_schema: null close: name: close - description: closes plate carrier + description: Closes the plate carrier args: {} locations: {} files: {} results: {} blocking: false asynchronous: true + accepts_var_args: false + accepts_var_kwargs: false + var_args_schema: null + var_kwargs_schema: null run_assay: name: run_assay - description: runs assay on the current sample + description: Runs the specificed assay on the current sample args: assay_name: name: assay_name - description: assay to run + description: Name of the assay to run argument_type: str required: true default: null @@ -61,18 +70,26 @@ actions: default: true locations: {} files: {} - results: {} + results: + file: + result_label: file + description: null + result_type: file blocking: false asynchronous: true + accepts_var_args: false + accepts_var_kwargs: false + var_args_schema: null + var_kwargs_schema: null config: - node_definition: definitions/hidex_howard.node.yaml + node_definition: C:\\Users\\RPL\\source\\repos\\hidex_module\\definitions\\hidex_howard.node.yaml node_info_path: null update_node_files: true status_update_interval: 2.0 state_update_interval: 2.0 - node_url: http://hudson01.cels.anl.gov:2000/ + node_url: http://suestorm.cels.anl.gov:3000/ uvicorn_kwargs: {} - output_path: C:\Users\svcaibio\Desktop\results + output_path: C:\Users\RPL\Desktop\results config_schema: description: Configuration for the Hidex REST node properties: @@ -132,10 +149,9 @@ config_schema: title: Uvicorn Configuration type: object output_path: - anyOf: - - 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requires-python = ">=3.10,<3.14" readme = "README.md" diff --git a/run_hidex.bat b/run_hidex.bat new file mode 100644 index 0000000..a3c7afc --- /dev/null +++ b/run_hidex.bat @@ -0,0 +1,4 @@ +cd /d "%~dp0" +call ".venv\Scripts\activate.bat" +python "src\hidex_rest_node.py" --node_url http://suestorm.cels.anl.gov:3000 --node_definition "C:\\Users\\RPL\\source\\repos\\hidex_module\\definitions\\hidex_howard.node.yaml" +pause diff --git a/src/hidex_interface/App.config b/src/hidex_interface/App.config index 366b3d2..8a09df8 100644 --- a/src/hidex_interface/App.config +++ b/src/hidex_interface/App.config @@ -1,6 +1,6 @@  - + @@ -19,4 +19,4 @@ contract="HidexService.IHidexSenseAutomationService" name="CustomBinding_IHidexSenseAutomationService" /> - \ No newline at end of file + diff --git a/src/hidex_interface/Connected Services/HidexService/Arrays.xsd b/src/hidex_interface/Connected Services/HidexService/Arrays.xsd index c7a5d70..b155124 100644 --- a/src/hidex_interface/Connected Services/HidexService/Arrays.xsd +++ b/src/hidex_interface/Connected Services/HidexService/Arrays.xsd @@ -6,4 +6,4 @@ - \ No newline at end of file + diff --git a/src/hidex_interface/Connected Services/HidexService/HidexInterface.HidexService.InstrumentState.datasource b/src/hidex_interface/Connected Services/HidexService/HidexInterface.HidexService.InstrumentState.datasource index 9e5bfb5..0ccaaa4 100644 --- a/src/hidex_interface/Connected Services/HidexService/HidexInterface.HidexService.InstrumentState.datasource +++ b/src/hidex_interface/Connected Services/HidexService/HidexInterface.HidexService.InstrumentState.datasource @@ -1,10 +1,10 @@  HidexInterface.HidexService.InstrumentState, Connected Services.HidexService.Reference.cs.dll, Version=0.0.0.0, Culture=neutral, PublicKeyToken=null - \ No newline at end of file + diff --git a/src/hidex_interface/Connected Services/HidexService/HidexSense.Automation.xsd b/src/hidex_interface/Connected Services/HidexService/HidexSense.Automation.xsd index e54557d..824e6dc 100644 --- a/src/hidex_interface/Connected Services/HidexService/HidexSense.Automation.xsd +++ b/src/hidex_interface/Connected Services/HidexService/HidexSense.Automation.xsd @@ -8,4 +8,4 @@ - \ No newline at end of file + diff --git a/src/hidex_interface/Connected Services/HidexService/HidexSenseAutomation.wsdl b/src/hidex_interface/Connected Services/HidexService/HidexSenseAutomation.wsdl index a4edcf4..1db6cca 100644 --- a/src/hidex_interface/Connected Services/HidexService/HidexSenseAutomation.wsdl +++ b/src/hidex_interface/Connected Services/HidexService/HidexSenseAutomation.wsdl @@ -166,4 +166,4 @@ - \ No newline at end of file + diff --git a/src/hidex_interface/Connected Services/HidexService/HidexSenseAutomation.xsd b/src/hidex_interface/Connected Services/HidexService/HidexSenseAutomation.xsd index 3823ec2..f72ee47 100644 --- a/src/hidex_interface/Connected Services/HidexService/HidexSenseAutomation.xsd +++ b/src/hidex_interface/Connected Services/HidexService/HidexSenseAutomation.xsd @@ -189,4 +189,4 @@ - \ No newline at end of file + diff --git a/src/hidex_interface/Connected Services/HidexService/Reference.cs b/src/hidex_interface/Connected Services/HidexService/Reference.cs index 24271ad..b0da3f2 100644 --- a/src/hidex_interface/Connected Services/HidexService/Reference.cs +++ b/src/hidex_interface/Connected Services/HidexService/Reference.cs @@ -10,329 +10,329 @@ namespace HidexInterface.HidexService { using System.Runtime.Serialization; - - + + [System.CodeDom.Compiler.GeneratedCodeAttribute("System.Runtime.Serialization", "4.0.0.0")] [System.Runtime.Serialization.DataContractAttribute(Name="InstrumentState", Namespace="http://schemas.datacontract.org/2004/07/HidexSense.Automation")] public enum InstrumentState : int { - + [System.Runtime.Serialization.EnumMemberAttribute()] Unknown = 0, - + [System.Runtime.Serialization.EnumMemberAttribute()] Idle = 1, - + [System.Runtime.Serialization.EnumMemberAttribute()] Busy = 2, } - + [System.CodeDom.Compiler.GeneratedCodeAttribute("System.ServiceModel", "4.0.0.0")] [System.ServiceModel.ServiceContractAttribute(Namespace="http://AurentiaSolutions/HidexSenseAutomation", ConfigurationName="HidexService.IHidexSenseAutomationService", CallbackContract=typeof(HidexInterface.HidexService.IHidexSenseAutomationServiceCallback), SessionMode=System.ServiceModel.SessionMode.Required)] public interface IHidexSenseAutomationService { - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + "Assay", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + "AssayResponse")] bool CanRunAssay(string templateName); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + "Assay", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + "AssayResponse")] System.Threading.Tasks.Task CanRunAssayAsync(string templateName); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + "AssayWithSampleData", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + "AssayWithSampleDataResponse")] bool CanRunAssayWithSampleData(string templateName, string sampleDataCsvContent); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + "AssayWithSampleData", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CanRun" + "AssayWithSampleDataResponse")] System.Threading.Tasks.Task CanRunAssayWithSampleDataAsync(string templateName, string sampleDataCsvContent); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CloseP" + "lateCarrier", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CloseP" + "lateCarrierResponse")] void ClosePlateCarrier(); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CloseP" + "lateCarrier", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/CloseP" + "lateCarrierResponse")] System.Threading.Tasks.Task ClosePlateCarrierAsync(); - + [System.ServiceModel.OperationContractAttribute(Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Connec" + "t", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Connec" + "tResponse")] void Connect(bool allowSimulation); - + [System.ServiceModel.OperationContractAttribute(Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Connec" + "t", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Connec" + "tResponse")] System.Threading.Tasks.Task ConnectAsync(bool allowSimulation); - + [System.ServiceModel.OperationContractAttribute(IsTerminating=true, IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Discon" + "nect", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Discon" + "nectResponse")] void Disconnect(); - + [System.ServiceModel.OperationContractAttribute(IsTerminating=true, IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Discon" + "nect", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/Discon" + "nectResponse")] System.Threading.Tasks.Task DisconnectAsync(); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAss" + "ays", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAss" + "aysResponse")] string[] GetAssays(); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAss" + "ays", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAss" + "aysResponse")] System.Threading.Tasks.Task GetAssaysAsync(); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAut" + "oExportPath", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAut" + "oExportPathResponse")] string GetAutoExportPath(); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAut" + "oExportPath", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetAut" + "oExportPathResponse")] System.Threading.Tasks.Task GetAutoExportPathAsync(); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetInt" + "erfaceVersion", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetInt" + "erfaceVersionResponse")] string GetInterfaceVersion(); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetInt" + "erfaceVersion", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetInt" + "erfaceVersionResponse")] System.Threading.Tasks.Task GetInterfaceVersionAsync(); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetSta" + "te", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetSta" + "teResponse")] HidexInterface.HidexService.InstrumentState GetState(); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetSta" + "te", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/GetSta" + "teResponse")] System.Threading.Tasks.Task GetStateAsync(); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/OpenPl" + "ateCarrier", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/OpenPl" + "ateCarrierResponse")] void OpenPlateCarrier(); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/OpenPl" + "ateCarrier", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/OpenPl" + "ateCarrierResponse")] System.Threading.Tasks.Task OpenPlateCarrierAsync(); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/SetAut" + "oExportPath", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/SetAut" + "oExportPathResponse")] void SetAutoExportPath(string exportPath); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/SetAut" + "oExportPath", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/SetAut" + "oExportPathResponse")] System.Threading.Tasks.Task SetAutoExportPathAsync(string exportPath); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + "ssay", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + "ssayResponse")] void StartAssay(string templateName); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + "ssay", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + "ssayResponse")] System.Threading.Tasks.Task StartAssayAsync(string templateName); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + "ssayWithMetadata", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + "ssayWithMetadataResponse")] void StartAssayWithMetadata(string templateName, string resultTitle, string resultComment); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + "ssayWithMetadata", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + "ssayWithMetadataResponse")] System.Threading.Tasks.Task StartAssayWithMetadataAsync(string templateName, string resultTitle, string resultComment); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + "ssayWithSampleData", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + "ssayWithSampleDataResponse")] void StartAssayWithSampleData(string templateName, string resultTitle, string resultComment, string sampleDataCsvContent); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + "ssayWithSampleData", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StartA" + "ssayWithSampleDataResponse")] System.Threading.Tasks.Task StartAssayWithSampleDataAsync(string templateName, string resultTitle, string resultComment, string sampleDataCsvContent); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StopAs" + "say", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StopAs" + "sayResponse")] void StopAssay(); - + [System.ServiceModel.OperationContractAttribute(IsInitiating=false, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StopAs" + "say", ReplyAction="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/StopAs" + "sayResponse")] System.Threading.Tasks.Task StopAssayAsync(); } - + [System.CodeDom.Compiler.GeneratedCodeAttribute("System.ServiceModel", "4.0.0.0")] public interface IHidexSenseAutomationServiceCallback { - + [System.ServiceModel.OperationContractAttribute(IsOneWay=true, Action="http://AurentiaSolutions/HidexSenseAutomation/IHidexSenseAutomationService/OnStat" + "eChanged")] void OnStateChanged(); } - + [System.CodeDom.Compiler.GeneratedCodeAttribute("System.ServiceModel", "4.0.0.0")] public interface IHidexSenseAutomationServiceChannel : HidexInterface.HidexService.IHidexSenseAutomationService, System.ServiceModel.IClientChannel { } - + [System.Diagnostics.DebuggerStepThroughAttribute()] [System.CodeDom.Compiler.GeneratedCodeAttribute("System.ServiceModel", "4.0.0.0")] public partial class HidexSenseAutomationServiceClient : System.ServiceModel.DuplexClientBase, HidexInterface.HidexService.IHidexSenseAutomationService { - - public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance) : + + public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance) : base(callbackInstance) { } - - public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance, string endpointConfigurationName) : + + public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance, string endpointConfigurationName) : base(callbackInstance, endpointConfigurationName) { } - - public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance, string endpointConfigurationName, string remoteAddress) : + + public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance, string endpointConfigurationName, string remoteAddress) : base(callbackInstance, endpointConfigurationName, remoteAddress) { } - - public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance, string endpointConfigurationName, System.ServiceModel.EndpointAddress remoteAddress) : + + public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance, string endpointConfigurationName, System.ServiceModel.EndpointAddress remoteAddress) : base(callbackInstance, endpointConfigurationName, remoteAddress) { } - - public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance, System.ServiceModel.Channels.Binding binding, System.ServiceModel.EndpointAddress remoteAddress) : + + public HidexSenseAutomationServiceClient(System.ServiceModel.InstanceContext callbackInstance, System.ServiceModel.Channels.Binding binding, System.ServiceModel.EndpointAddress remoteAddress) : base(callbackInstance, binding, remoteAddress) { } - + public bool CanRunAssay(string templateName) { return base.Channel.CanRunAssay(templateName); } - + public System.Threading.Tasks.Task CanRunAssayAsync(string templateName) { return base.Channel.CanRunAssayAsync(templateName); } - + public bool CanRunAssayWithSampleData(string templateName, string sampleDataCsvContent) { return base.Channel.CanRunAssayWithSampleData(templateName, sampleDataCsvContent); } - + public System.Threading.Tasks.Task CanRunAssayWithSampleDataAsync(string templateName, string sampleDataCsvContent) { return base.Channel.CanRunAssayWithSampleDataAsync(templateName, sampleDataCsvContent); } - + public void ClosePlateCarrier() { base.Channel.ClosePlateCarrier(); } - + public System.Threading.Tasks.Task ClosePlateCarrierAsync() { return base.Channel.ClosePlateCarrierAsync(); } - + public void Connect(bool allowSimulation) { base.Channel.Connect(allowSimulation); } - + public System.Threading.Tasks.Task ConnectAsync(bool allowSimulation) { return base.Channel.ConnectAsync(allowSimulation); } - + public void Disconnect() { base.Channel.Disconnect(); } - + public System.Threading.Tasks.Task DisconnectAsync() { return base.Channel.DisconnectAsync(); } - + public string[] GetAssays() { return base.Channel.GetAssays(); } - + public System.Threading.Tasks.Task GetAssaysAsync() { return base.Channel.GetAssaysAsync(); } - + public string GetAutoExportPath() { return base.Channel.GetAutoExportPath(); } - + public System.Threading.Tasks.Task GetAutoExportPathAsync() { return base.Channel.GetAutoExportPathAsync(); } - + public string GetInterfaceVersion() { return base.Channel.GetInterfaceVersion(); } - + public System.Threading.Tasks.Task GetInterfaceVersionAsync() { return base.Channel.GetInterfaceVersionAsync(); } - + public HidexInterface.HidexService.InstrumentState GetState() { return base.Channel.GetState(); } - + public System.Threading.Tasks.Task GetStateAsync() { return base.Channel.GetStateAsync(); } - + public void OpenPlateCarrier() { base.Channel.OpenPlateCarrier(); } - + public System.Threading.Tasks.Task OpenPlateCarrierAsync() { return base.Channel.OpenPlateCarrierAsync(); } - + public void SetAutoExportPath(string exportPath) { base.Channel.SetAutoExportPath(exportPath); } - + public System.Threading.Tasks.Task SetAutoExportPathAsync(string exportPath) { return base.Channel.SetAutoExportPathAsync(exportPath); } - + public void StartAssay(string templateName) { base.Channel.StartAssay(templateName); } - + public System.Threading.Tasks.Task StartAssayAsync(string templateName) { return base.Channel.StartAssayAsync(templateName); } - + public void StartAssayWithMetadata(string templateName, string resultTitle, string resultComment) { base.Channel.StartAssayWithMetadata(templateName, resultTitle, resultComment); } - + public System.Threading.Tasks.Task StartAssayWithMetadataAsync(string templateName, string resultTitle, string resultComment) { return base.Channel.StartAssayWithMetadataAsync(templateName, resultTitle, resultComment); } - + public void StartAssayWithSampleData(string templateName, string resultTitle, string resultComment, string sampleDataCsvContent) { base.Channel.StartAssayWithSampleData(templateName, resultTitle, resultComment, sampleDataCsvContent); } - + public System.Threading.Tasks.Task StartAssayWithSampleDataAsync(string templateName, string resultTitle, string resultComment, string sampleDataCsvContent) { return base.Channel.StartAssayWithSampleDataAsync(templateName, resultTitle, resultComment, sampleDataCsvContent); } - + public void StopAssay() { base.Channel.StopAssay(); } - + public System.Threading.Tasks.Task StopAssayAsync() { return base.Channel.StopAssayAsync(); } diff --git a/src/hidex_interface/Connected Services/HidexService/Reference.svcmap b/src/hidex_interface/Connected Services/HidexService/Reference.svcmap index a44b677..124ef09 100644 --- a/src/hidex_interface/Connected Services/HidexService/Reference.svcmap +++ b/src/hidex_interface/Connected Services/HidexService/Reference.svcmap @@ -33,4 +33,4 @@ - \ No newline at end of file + diff --git a/src/hidex_interface/Connected Services/HidexService/configuration.svcinfo b/src/hidex_interface/Connected Services/HidexService/configuration.svcinfo index 23b4060..defeb52 100644 --- a/src/hidex_interface/Connected Services/HidexService/configuration.svcinfo +++ b/src/hidex_interface/Connected Services/HidexService/configuration.svcinfo @@ -7,4 +7,4 @@ - \ No newline at end of file + diff --git a/src/hidex_interface/Connected Services/HidexService/configuration91.svcinfo b/src/hidex_interface/Connected Services/HidexService/configuration91.svcinfo index 2530d4f..de62b4f 100644 --- a/src/hidex_interface/Connected Services/HidexService/configuration91.svcinfo +++ b/src/hidex_interface/Connected Services/HidexService/configuration91.svcinfo @@ -228,4 +228,4 @@ - \ No newline at end of file + diff --git a/src/hidex_interface/Connected Services/HidexService/service.wsdl b/src/hidex_interface/Connected Services/HidexService/service.wsdl index e90d9f6..2a7af7a 100644 --- a/src/hidex_interface/Connected Services/HidexService/service.wsdl +++ b/src/hidex_interface/Connected Services/HidexService/service.wsdl @@ -167,4 +167,4 @@ - \ No newline at end of file + diff --git a/src/hidex_interface/Connected Services/HidexService/service.xsd b/src/hidex_interface/Connected Services/HidexService/service.xsd index b4d5ff0..72a2247 100644 --- a/src/hidex_interface/Connected Services/HidexService/service.xsd +++ b/src/hidex_interface/Connected Services/HidexService/service.xsd @@ -39,4 +39,4 @@ - \ No newline at end of file + diff --git a/src/hidex_interface/HidexInterface.csproj b/src/hidex_interface/HidexInterface.csproj index 9bf7d68..764c070 100644 --- a/src/hidex_interface/HidexInterface.csproj +++ b/src/hidex_interface/HidexInterface.csproj @@ -89,4 +89,4 @@ - \ No newline at end of file + diff --git a/src/hidex_rest_node.py b/src/hidex_rest_node.py index 5ca33b3..df7010e 100644 --- a/src/hidex_rest_node.py +++ b/src/hidex_rest_node.py @@ -5,20 +5,31 @@ import os import time from pathlib import Path, WindowsPath -from typing import Annotated, Optional +from typing import Annotated import clr -from madsci.client.resource_client import ResourceClient -from madsci.common.types.action_types import ActionCancelled, ActionFailed, ActionResult, ActionSucceeded +from madsci.common.types.action_types import ( + ActionCancelled, + ActionSucceeded, +) from madsci.common.types.admin_command_types import AdminCommandResponse from madsci.common.types.node_types import RestNodeConfig +from madsci.common.types.resource_types import Slot from madsci.node_module.helpers import action from madsci.node_module.rest_node_module import RestNode -clr.AddReference(str(WindowsPath(__file__).parent / "hidex_interface" / "bin" / "Debug" / "HidexInterface.dll")) -import HidexInterface # type: ignore # noqa: E402, I001 -import HidexInterface.HidexService as HidexService # type: ignore # noqa: E402, PLR0402 -import System # type: ignore # noqa: E402 +clr.AddReference( + str( + WindowsPath(__file__).parent + / "hidex_interface" + / "bin" + / "Debug" + / "HidexInterface.dll" + ) +) +import HidexInterface # type: ignore # noqa: E402 +import HidexInterface.HidexService as HidexService # type: ignore # noqa: E402, PLR0402 +import System # type: ignore # noqa: E402 from System import ServiceModel # type: ignore # noqa: E402 from System.ServiceModel import Channels # type: ignore # noqa: E402 @@ -26,7 +37,7 @@ class HidexNodeConfig(RestNodeConfig): """Configuration for the Hidex REST node""" - output_path: Optional[str] = "C:\\Users\\svcaibio\\Desktop\\results" + output_path: Path = Path.home() / "Desktop" / "results" """Path where the Hidex saves assay results""" @@ -44,6 +55,8 @@ class HidexNode(RestNode): def startup_handler(self) -> None: """Called to (re)initialize the node. Opens a connection to the Hidex.""" + self.initialize_resource_templates() + self.create_resources() sbe = Channels.ReliableSessionBindingElement() binding = Channels.CustomBinding() @@ -53,7 +66,9 @@ def startup_handler(self) -> None: self.hidex_interface = HidexService.HidexSenseAutomationServiceClient( ServiceModel.InstanceContext(HidexInterface.Callback_Wrapper()), binding, - ServiceModel.EndpointAddress(System.Uri("net.pipe://localhost/HidexSenseAutomation/")), + ServiceModel.EndpointAddress( + System.Uri("net.pipe://localhost/HidexSenseAutomation/") + ), ) self.hidex_interface.Connect(False) state = self.hidex_interface.GetState() @@ -65,6 +80,24 @@ def startup_handler(self) -> None: self.cancelled = False self.logger.log("Hidex node initialized!") + def initialize_resource_templates(self) -> None: + """Initialize the resource templates for the Hidex Node Module""" + self.resource_client.create_template( + template_name="hidex.nest", + description="Plate nest for a Hidex Sense Plate Reader", + resource=Slot( + resource_description="Plate nest for a Hidex Node", + ), + version="1.0.0", + ) + + def create_resources(self) -> None: + """Create or attach to the resources for this node""" + self.resource_client.create_resource_from_template( + template_name="hidex.nest", + resource_name=f"{self.node_definition.node_name}.nest", + ) + def shutdown_handler(self) -> None: """Called to shutdown the node. Should be used to close connections to devices or release any other resources.""" self.logger.log("Shutting down") @@ -106,17 +139,21 @@ def close(self) -> None: time.sleep(5) return ActionSucceeded() - @action(name="run_assay", description="Runs the specificed assay on the current sample") + @action( + name="run_assay", description="Runs the specificed assay on the current sample" + ) def run_assay( self, assay_name: Annotated[str, "Name of the assay to run"], - wait_for_result: Annotated[bool, "Whether we should wait for the results of the assay before returning"] = True, - ) -> Optional[Annotated[Path, "The assay result"]]: + wait_for_result: Annotated[ + bool, "Whether we should wait for the results of the assay before returning" + ] = True, + ) -> Annotated[Path, "The assay result"]: """Runs assay on the current sample""" self.cancelled = False pre_submit_time = time.time() - self.hidex_interface.SetAutoExportPath(self.config.output_path) + self.hidex_interface.SetAutoExportPath(str(self.config.output_path)) self.hidex_interface.StartAssay(assay_name) while self.hidex_interface.GetState() == HidexService.InstrumentState.Busy: pass @@ -126,14 +163,18 @@ def run_assay( files = list(Path(self.config.output_path).glob("*")) if files: latest_file = max(files, key=os.path.getctime) - if latest_file.is_file() and latest_file.stat().st_birthtime > pre_submit_time: + if ( + latest_file.is_file() + and latest_file.stat().st_birthtime > pre_submit_time + ): break else: self.logger.log_debug("Assay cancelled before completion") return ActionCancelled(errors=["Assay cancelled before completion"]) return ActionSucceeded(files={"assay_result": latest_file}) self.cancelled = False - return ActionSucceeded() + + return None def cancel(self) -> AdminCommandResponse: """Cancels the current assay""" From d96d6788da21635b216831d1c72ed0a5d0b04c96 Mon Sep 17 00:00:00 2001 From: "Ryan D. Lewis" Date: Thu, 28 May 2026 17:12:59 -0500 Subject: [PATCH 13/14] Upgrade to MADSci 0.8 MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit - pyproject: madsci.*~=0.6.0 → ~=0.8.0. - Replace removed self.node_definition.node_name with self.node_info.node_name in resource creation (v0.8 breaking change — see liquidhandler example in the MADSci v0.8 docs). - pdm.lock regenerated against v0.8. - .gitignore: ignore .madsci/ (per-machine runtime state). Co-Authored-By: Claude Opus 4.7 --- .gitignore | 3 + pdm.lock | 634 ++++++++++++++++------------------------- pyproject.toml | 6 +- src/hidex_rest_node.py | 2 +- 4 files changed, 260 insertions(+), 385 deletions(-) diff --git a/.gitignore b/.gitignore index 8cc47e1..08afec0 100644 --- a/.gitignore +++ b/.gitignore @@ -559,3 +559,6 @@ cython_debug/ # and can be added to the global gitignore or merged into this file. For a more nuclear # option (not recommended) you can uncomment the following to ignore the entire idea folder. #.idea/ + +# MADSci runtime state (logs, ID registry) — per-machine, not shared +.madsci/ diff --git a/pdm.lock b/pdm.lock index dbb2bfc..230bee4 100644 --- a/pdm.lock +++ b/pdm.lock @@ -3,9 +3,9 @@ [metadata] groups = ["default", "dev"] -strategy = ["inherit_metadata"] +strategy = [] lock_version = "4.5.0" -content_hash = "sha256:14fe899435b4c824371fec62bdabc58900a4ab06f27df0c291c1223164ee86ea" +content_hash = "sha256:9d230ad41e3236edeee8325558cf0dfea5b16f3cf0747e7e5c77c6df05e405dc" [[metadata.targets]] requires_python = ">=3.10,<3.14" @@ -13,18 +13,16 @@ requires_python = ">=3.10,<3.14" [[package]] name = "aenum" version = "3.1.16" -summary = "Advanced Enumerations (compatible with Python's stdlib Enum), NamedTuples, and NamedConstants" -groups = ["default"] +summary = "" files = [ {file = "aenum-3.1.16-py3-none-any.whl", hash = "sha256:9035092855a98e41b66e3d0998bd7b96280e85ceb3a04cc035636138a1943eaf"}, + {file = "aenum-3.1.16.tar.gz", hash = "sha256:bfaf9589bdb418ee3a986d85750c7318d9d2839c1b1a1d6fe8fc53ec201cf140"}, ] [[package]] name = "annotated-doc" version = "0.0.4" -requires_python = ">=3.8" -summary = "Document parameters, class attributes, return types, and variables inline, with Annotated." -groups = ["default"] +summary = "" files = [ {file = "annotated_doc-0.0.4-py3-none-any.whl", hash = "sha256:571ac1dc6991c450b25a9c2d84a3705e2ae7a53467b5d111c24fa8baabbed320"}, {file = "annotated_doc-0.0.4.tar.gz", hash = "sha256:fbcda96e87e9c92ad167c2e53839e57503ecfda18804ea28102353485033faa4"}, @@ -33,12 +31,7 @@ files = [ [[package]] name = "annotated-types" version = "0.7.0" -requires_python = ">=3.8" -summary = "Reusable constraint types to use with typing.Annotated" -groups = ["default"] -dependencies = [ - "typing-extensions>=4.0.0; python_version < \"3.9\"", -] +summary = "" files = [ {file = "annotated_types-0.7.0-py3-none-any.whl", hash = "sha256:1f02e8b43a8fbbc3f3e0d4f0f4bfc8131bcb4eebe8849b8e5c773f3a1c582a53"}, {file = "annotated_types-0.7.0.tar.gz", hash = "sha256:aff07c09a53a08bc8cfccb9c85b05f1aa9a2a6f23728d790723543408344ce89"}, @@ -47,14 +40,12 @@ files = [ [[package]] name = "anyio" version = "4.11.0" -requires_python = ">=3.9" -summary = "High-level concurrency and networking framework on top of asyncio or Trio" -groups = ["default"] +summary = "" dependencies = [ - "exceptiongroup>=1.0.2; python_version < \"3.11\"", - "idna>=2.8", - "sniffio>=1.1", - "typing-extensions>=4.5; python_version < \"3.13\"", + "exceptiongroup; python_full_version < \"3.11\"", + "idna", + "sniffio", + "typing-extensions; python_full_version < \"3.13\"", ] files = [ {file = "anyio-4.11.0-py3-none-any.whl", hash = "sha256:0287e96f4d26d4149305414d4e3bc32f0dcd0862365a4bddea19d7a1ec38c4fc"}, @@ -64,9 +55,7 @@ files = [ [[package]] name = "argon2-cffi" version = "25.1.0" -requires_python = ">=3.8" -summary = "Argon2 for Python" -groups = ["default"] +summary = "" dependencies = [ "argon2-cffi-bindings", ] @@ -78,12 +67,9 @@ files = [ [[package]] name = "argon2-cffi-bindings" version = "25.1.0" -requires_python = ">=3.9" -summary = "Low-level CFFI bindings for Argon2" -groups = ["default"] +summary = "" dependencies = [ - "cffi>=1.0.1; python_version < \"3.14\"", - "cffi>=2.0.0b1; python_version >= \"3.14\"", + "cffi", ] files = [ {file = "argon2_cffi_bindings-25.1.0-cp39-abi3-macosx_10_9_universal2.whl", hash = "sha256:aecba1723ae35330a008418a91ea6cfcedf6d31e5fbaa056a166462ff066d500"}, @@ -107,9 +93,7 @@ files = [ [[package]] name = "certifi" version = "2025.11.12" -requires_python = ">=3.7" -summary = "Python package for providing Mozilla's CA Bundle." -groups = ["default"] +summary = "" files = [ {file = "certifi-2025.11.12-py3-none-any.whl", hash = "sha256:97de8790030bbd5c2d96b7ec782fc2f7820ef8dba6db909ccf95449f2d062d4b"}, {file = "certifi-2025.11.12.tar.gz", hash = "sha256:d8ab5478f2ecd78af242878415affce761ca6bc54a22a27e026d7c25357c3316"}, @@ -118,9 +102,7 @@ files = [ [[package]] name = "cffi" version = "2.0.0" -requires_python = ">=3.9" -summary = "Foreign Function Interface for Python calling C code." -groups = ["default"] +summary = "" dependencies = [ "pycparser; implementation_name != \"PyPy\"", ] @@ -180,9 +162,7 @@ files = [ [[package]] name = "cfgv" version = "3.4.0" -requires_python = ">=3.8" -summary = "Validate configuration and produce human readable error messages." -groups = ["dev"] +summary = "" files = [ {file = "cfgv-3.4.0-py2.py3-none-any.whl", hash = "sha256:b7265b1f29fd3316bfcd2b330d63d024f2bfd8bcb8b0272f8e19a504856c48f9"}, {file = "cfgv-3.4.0.tar.gz", hash = "sha256:e52591d4c5f5dead8e0f673fb16db7949d2cfb3f7da4582893288f0ded8fe560"}, @@ -191,9 +171,7 @@ files = [ [[package]] name = "charset-normalizer" version = "3.4.4" -requires_python = ">=3.7" -summary = "The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet." -groups = ["default"] +summary = "" files = [ {file = "charset_normalizer-3.4.4-cp310-cp310-macosx_10_9_universal2.whl", hash = "sha256:e824f1492727fa856dd6eda4f7cee25f8518a12f3c4a56a74e8095695089cf6d"}, {file = "charset_normalizer-3.4.4-cp310-cp310-manylinux2014_aarch64.manylinux_2_17_aarch64.manylinux_2_28_aarch64.whl", hash = "sha256:4bd5d4137d500351a30687c2d3971758aac9a19208fc110ccb9d7188fbe709e8"}, @@ -266,12 +244,10 @@ files = [ [[package]] name = "classy-fastapi" version = "0.7.0" -requires_python = ">=3.9" -summary = "Class based routing for FastAPI" -groups = ["default"] +summary = "" dependencies = [ - "fastapi<1.0.0,>=0.73.0", - "pydantic<3.0.0,>=2.8", + "fastapi", + "pydantic", ] files = [ {file = "classy_fastapi-0.7.0-py3-none-any.whl", hash = "sha256:eea211181d065fecb543d68b75a6a6ab93393bb7ca48551887fa898ba7d40ec3"}, @@ -281,11 +257,9 @@ files = [ [[package]] name = "click" version = "8.3.0" -requires_python = ">=3.10" -summary = "Composable command line interface toolkit" -groups = ["default"] +summary = "" dependencies = [ - "colorama; platform_system == \"Windows\"", + "colorama; sys_platform == \"win32\"", ] files = [ {file = "click-8.3.0-py3-none-any.whl", hash = "sha256:9b9f285302c6e3064f4330c05f05b81945b2a39544279343e6e7c5f27a9baddc"}, @@ -295,12 +269,9 @@ files = [ [[package]] name = "clr-loader" version = "0.2.8" -requires_python = ">=3.7" -summary = "Generic pure Python loader for .NET runtimes" -groups = ["default"] +summary = "" dependencies = [ - "cffi>=1.13; python_version <= \"3.8\"", - "cffi>=1.17; python_version >= \"3.8\"", + "cffi", ] files = [ {file = "clr_loader-0.2.8-py3-none-any.whl", hash = "sha256:2cd76904e2f68fecab1ad1d158fb2905b5173a2b0cd54606d548518642bfbce9"}, @@ -310,10 +281,7 @@ files = [ [[package]] name = "colorama" version = "0.4.6" -requires_python = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*,!=3.6.*,>=2.7" -summary = "Cross-platform colored terminal text." -groups = ["default", "dev"] -marker = "sys_platform == \"win32\" or platform_system == \"Windows\"" +summary = "" files = [ {file = "colorama-0.4.6-py2.py3-none-any.whl", hash = "sha256:4f1d9991f5acc0ca119f9d443620b77f9d6b33703e51011c16baf57afb285fc6"}, {file = "colorama-0.4.6.tar.gz", hash = "sha256:08695f5cb7ed6e0531a20572697297273c47b8cae5a63ffc6d6ed5c201be6e44"}, @@ -322,9 +290,7 @@ files = [ [[package]] name = "dill" version = "0.4.0" -requires_python = ">=3.8" -summary = "serialize all of Python" -groups = ["default"] +summary = "" files = [ {file = "dill-0.4.0-py3-none-any.whl", hash = "sha256:44f54bf6412c2c8464c14e8243eb163690a9800dbe2c367330883b19c7561049"}, {file = "dill-0.4.0.tar.gz", hash = "sha256:0633f1d2df477324f53a895b02c901fb961bdbf65a17122586ea7019292cbcf0"}, @@ -333,8 +299,7 @@ files = [ [[package]] name = "distlib" version = "0.4.0" -summary = "Distribution utilities" -groups = ["dev"] +summary = "" files = [ {file = "distlib-0.4.0-py2.py3-none-any.whl", hash = "sha256:9659f7d87e46584a30b5780e43ac7a2143098441670ff0a49d5f9034c54a6c16"}, {file = "distlib-0.4.0.tar.gz", hash = "sha256:feec40075be03a04501a973d81f633735b4b69f98b05450592310c0f401a4e0d"}, @@ -343,9 +308,7 @@ files = [ [[package]] name = "dnspython" version = "2.8.0" -requires_python = ">=3.10" -summary = "DNS toolkit" -groups = ["default"] +summary = "" files = [ {file = "dnspython-2.8.0-py3-none-any.whl", hash = "sha256:01d9bbc4a2d76bf0db7c1f729812ded6d912bd318d3b1cf81d30c0f845dbf3af"}, {file = "dnspython-2.8.0.tar.gz", hash = "sha256:181d3c6996452cb1189c4046c61599b84a5a86e099562ffde77d26984ff26d0f"}, @@ -354,12 +317,9 @@ files = [ [[package]] name = "exceptiongroup" version = "1.3.0" -requires_python = ">=3.7" -summary = "Backport of PEP 654 (exception groups)" -groups = ["default", "dev"] -marker = "python_version < \"3.11\"" +summary = "" dependencies = [ - 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"pydantic>=2.0", + "pydantic", "python-ulid==3.1.0", ] files = [ @@ -1190,11 +1093,9 @@ files = [ [[package]] name = "pythonnet" version = "3.0.5" -requires_python = "<3.14,>=3.7" -summary = ".NET and Mono integration for Python" -groups = ["default"] +summary = "" dependencies = [ - "clr-loader<0.3.0,>=0.2.7", + "clr-loader", ] files = [ {file = "pythonnet-3.0.5-py3-none-any.whl", hash = "sha256:f6702d694d5d5b163c9f3f5cc34e0bed8d6857150237fae411fefb883a656d20"}, @@ -1204,9 +1105,7 @@ files = [ [[package]] name = "pyyaml" version = "6.0.3" -requires_python = ">=3.8" -summary = "YAML parser and emitter for Python" -groups = ["default", "dev"] +summary = "" files = [ {file = "pyyaml-6.0.3-cp310-cp310-macosx_10_13_x86_64.whl", hash = "sha256:214ed4befebe12df36bcc8bc2b64b396ca31be9304b8f59e25c11cf94a4c033b"}, {file = "pyyaml-6.0.3-cp310-cp310-macosx_11_0_arm64.whl", hash = "sha256:02ea2dfa234451bbb8772601d7b8e426c2bfa197136796224e50e35a78777956"}, @@ -1252,9 +1151,7 @@ files = [ [[package]] name = "regex" version = "2025.11.3" -requires_python = ">=3.9" -summary = "Alternative regular expression module, to replace re." -groups = ["default"] +summary = "" files = [ {file = "regex-2025.11.3-cp310-cp310-macosx_10_9_universal2.whl", hash = "sha256:2b441a4ae2c8049106e8b39973bfbddfb25a179dda2bdb99b0eeb60c40a6a3af"}, {file = "regex-2025.11.3-cp310-cp310-macosx_10_9_x86_64.whl", hash = "sha256:2fa2eed3f76677777345d2f81ee89f5de2f5745910e805f7af7386a920fa7313"}, @@ -1333,14 +1230,12 @@ files = [ [[package]] name = "requests" version = "2.32.5" -requires_python = ">=3.9" -summary = "Python HTTP for Humans." -groups = ["default"] +summary = "" dependencies = [ - "certifi>=2017.4.17", - "charset-normalizer<4,>=2", - "idna<4,>=2.5", - "urllib3<3,>=1.21.1", + "certifi", + "charset-normalizer", + "idna", + "urllib3", ] files = [ {file = "requests-2.32.5-py3-none-any.whl", hash = "sha256:2462f94637a34fd532264295e186976db0f5d453d1cdd31473c85a6a161affb6"}, @@ -1350,12 +1245,10 @@ files = [ [[package]] name = "rich" version = "14.2.0" -requires_python = ">=3.8.0" -summary = "Render rich text, tables, progress bars, syntax highlighting, markdown and more to the terminal" -groups = ["default"] +summary = "" dependencies = [ - "markdown-it-py>=2.2.0", - "pygments<3.0.0,>=2.13.0", + "markdown-it-py", + "pygments", ] files = [ {file = "rich-14.2.0-py3-none-any.whl", hash = "sha256:76bc51fe2e57d2b1be1f96c524b890b816e334ab4c1e45888799bfaab0021edd"}, @@ -1365,9 +1258,7 @@ files = [ [[package]] name = "ruff" version = "0.14.10" -requires_python = ">=3.7" -summary = "An extremely fast Python linter and code formatter, written in Rust." -groups = ["dev"] +summary = "" files = [ {file = "ruff-0.14.10-py3-none-linux_armv6l.whl", hash = "sha256:7a3ce585f2ade3e1f29ec1b92df13e3da262178df8c8bdf876f48fa0e8316c49"}, {file = "ruff-0.14.10-py3-none-macosx_10_12_x86_64.whl", hash = "sha256:674f9be9372907f7257c51f1d4fc902cb7cf014b9980152b802794317941f08f"}, @@ -1393,20 +1284,25 @@ files = [ [[package]] name = "semver" version = "3.0.4" -requires_python = ">=3.7" -summary = "Python helper for Semantic Versioning (https://semver.org)" -groups = ["default"] +summary = "" files = [ {file = "semver-3.0.4-py3-none-any.whl", hash = "sha256:9c824d87ba7f7ab4a1890799cec8596f15c1241cb473404ea1cb0c55e4b04746"}, {file = "semver-3.0.4.tar.gz", hash = "sha256:afc7d8c584a5ed0a11033af086e8af226a9c0b206f313e0301f8dd7b6b589602"}, ] +[[package]] +name = "simpleeval" +version = "1.0.7" +summary = "" +files = [ + {file = "simpleeval-1.0.7-py3-none-any.whl", hash = "sha256:97ac271bfd8f2af9e7b9a36ceea67617f26fa873f9d5ae1922f64d4c1442534b"}, + {file = "simpleeval-1.0.7.tar.gz", hash = "sha256:1e10e5f9fec597814444e20c0892ed15162fa214c8a88f434b5b077cf2fef85b"}, +] + [[package]] name = "sniffio" version = "1.3.1" -requires_python = ">=3.7" -summary = "Sniff out which async library your code is running under" -groups = ["default"] +summary = "" files = [ {file = "sniffio-1.3.1-py3-none-any.whl", hash = "sha256:2f6da418d1f1e0fddd844478f41680e794e6051915791a034ff65e5f100525a2"}, {file = "sniffio-1.3.1.tar.gz", hash = "sha256:f4324edc670a0f49750a81b895f35c3adb843cca46f0530f79fc1babb23789dc"}, @@ -1415,13 +1311,10 @@ files = [ [[package]] name = "sqlalchemy" version = "2.0.44" -requires_python = ">=3.7" -summary = "Database Abstraction Library" -groups = ["default"] +summary = "" dependencies = [ - "greenlet>=1; platform_machine == \"win32\" or platform_machine == \"WIN32\" or platform_machine == \"AMD64\" or platform_machine == \"amd64\" or platform_machine == \"x86_64\" or platform_machine == \"ppc64le\" or platform_machine == \"aarch64\"", - "importlib-metadata; python_version < \"3.8\"", - "typing-extensions>=4.6.0", + "greenlet; platform_machine == \"AMD64\" or platform_machine == \"WIN32\" or platform_machine == \"aarch64\" or platform_machine == \"amd64\" or platform_machine == \"ppc64le\" or platform_machine == \"win32\" or platform_machine == \"x86_64\"", + "typing-extensions", ] files = [ {file = "sqlalchemy-2.0.44-cp310-cp310-macosx_10_9_x86_64.whl", hash = "sha256:7c77f3080674fc529b1bd99489378c7f63fcb4ba7f8322b79732e0258f0ea3ce"}, @@ -1463,12 +1356,10 @@ files = [ [[package]] name = "sqlmodel" version = "0.0.27" -requires_python = ">=3.8" -summary = "SQLModel, SQL databases in Python, designed for simplicity, compatibility, and robustness." -groups = ["default"] +summary = "" dependencies = [ - "SQLAlchemy<2.1.0,>=2.0.14", - "pydantic<3.0.0,>=1.10.13", + "pydantic", + "sqlalchemy", ] files = [ {file = "sqlmodel-0.0.27-py3-none-any.whl", hash = "sha256:667fe10aa8ff5438134668228dc7d7a08306f4c5c4c7e6ad3ad68defa0e7aa49"}, @@ -1478,31 +1369,39 @@ files = [ [[package]] name = "starlette" version = "0.49.3" -requires_python = ">=3.9" -summary = "The little ASGI library that shines." -groups = ["default"] +summary = "" dependencies = [ - "anyio<5,>=3.6.2", - "typing-extensions>=4.10.0; python_version < \"3.13\"", + "anyio", + "typing-extensions; python_full_version < \"3.13\"", ] files = [ {file = "starlette-0.49.3-py3-none-any.whl", hash = "sha256:b579b99715fdc2980cf88c8ec96d3bf1ce16f5a8051a7c2b84ef9b1cdecaea2f"}, {file = "starlette-0.49.3.tar.gz", hash = "sha256:1c14546f299b5901a1ea0e34410575bc33bbd741377a10484a54445588d00284"}, ] +[[package]] +name = "structlog" +version = "25.5.0" +summary = "" +dependencies = [ + "typing-extensions; python_full_version < \"3.11\"", +] +files = [ + {file = "structlog-25.5.0-py3-none-any.whl", hash = "sha256:a8453e9b9e636ec59bd9e79bbd4a72f025981b3ba0f5837aebf48f02f37a7f9f"}, + {file = "structlog-25.5.0.tar.gz", hash = "sha256:098522a3bebed9153d4570c6d0288abf80a031dfdb2048d59a49e9dc2190fc98"}, +] + [[package]] name = "textual" version = "6.6.0" -requires_python = "<4.0,>=3.9" -summary = "Modern Text User Interface framework" -groups = ["default"] +summary = "" dependencies = [ - "markdown-it-py[linkify]>=2.1.0", + "markdown-it-py[linkify]", "mdit-py-plugins", - "platformdirs<5,>=3.6.0", - "pygments<3.0.0,>=2.19.2", - "rich>=14.2.0", - "typing-extensions<5.0.0,>=4.4.0", + "platformdirs", + "pygments", + "rich", + "typing-extensions", ] files = [ {file = "textual-6.6.0-py3-none-any.whl", hash = "sha256:5a9484bd15ee8a6fd8ac4ed4849fb25ee56bed2cecc7b8a83c4cd7d5f19515e5"}, @@ -1512,10 +1411,7 @@ files = [ [[package]] name = "tomli" version = "2.3.0" -requires_python = ">=3.8" -summary = "A lil' TOML parser" -groups = ["default", "dev"] -marker = "python_version < \"3.11\"" +summary = "" files = [ {file = "tomli-2.3.0-cp311-cp311-macosx_10_9_x86_64.whl", hash = "sha256:88bd15eb972f3664f5ed4b57c1634a97153b4bac4479dcb6a495f41921eb7f45"}, {file = "tomli-2.3.0-cp311-cp311-macosx_11_0_arm64.whl", hash = "sha256:883b1c0d6398a6a9d29b508c331fa56adbcdff647f6ace4dfca0f50e90dfd0ba"}, @@ -1548,12 +1444,10 @@ files = [ [[package]] name = "trogon" version = "0.6.0" -requires_python = "<4.0.0,>=3.8.1" -summary = "Automatically generate a Textual TUI for your Click CLI" -groups = ["default"] +summary = "" dependencies = [ - "click>=8.0.0", - "textual>=0.61.0", + "click", + "textual", ] files = [ {file = "trogon-0.6.0-py3-none-any.whl", hash = "sha256:fb5b6c25acd7a0eaba8d2cd32a57f1d80c26413cea737dad7a4eebcda56060e0"}, @@ -1563,9 +1457,7 @@ files = [ [[package]] name = "typing-extensions" version = "4.15.0" -requires_python = ">=3.9" -summary = "Backported and Experimental Type Hints for Python 3.9+" -groups = ["default", "dev"] +summary = "" files = [ {file = "typing_extensions-4.15.0-py3-none-any.whl", hash = "sha256:f0fa19c6845758ab08074a0cfa8b7aecb71c999ca73d62883bc25cc018c4e548"}, {file = "typing_extensions-4.15.0.tar.gz", hash = "sha256:0cea48d173cc12fa28ecabc3b837ea3cf6f38c6d1136f85cbaaf598984861466"}, @@ -1574,11 +1466,9 @@ files = [ [[package]] name = "typing-inspection" version = "0.4.2" -requires_python = ">=3.9" -summary = "Runtime typing introspection tools" -groups = ["default"] +summary = "" dependencies = [ - "typing-extensions>=4.12.0", + "typing-extensions", ] files = [ {file = "typing_inspection-0.4.2-py3-none-any.whl", hash = "sha256:4ed1cacbdc298c220f1bd249ed5287caa16f34d44ef4e9c3d0cbad5b521545e7"}, @@ -1588,9 +1478,7 @@ files = [ [[package]] name = "uc-micro-py" version = "1.0.3" -requires_python = ">=3.7" -summary = "Micro subset of unicode data files for linkify-it-py projects." -groups = ["default"] +summary = "" files = [ {file = "uc-micro-py-1.0.3.tar.gz", hash = "sha256:d321b92cff673ec58027c04015fcaa8bb1e005478643ff4a500882eaab88c48a"}, {file = "uc_micro_py-1.0.3-py3-none-any.whl", hash = "sha256:db1dffff340817673d7b466ec86114a9dc0e9d4d9b5ba229d9d60e5c12600cd5"}, @@ -1599,9 +1487,7 @@ files = [ [[package]] name = "urllib3" version = "2.5.0" -requires_python = ">=3.9" -summary = "HTTP library with thread-safe connection pooling, file post, and more." -groups = ["default"] +summary = "" files = [ {file = "urllib3-2.5.0-py3-none-any.whl", hash = "sha256:e6b01673c0fa6a13e374b50871808eb3bf7046c4b125b216f6bf1cc604cff0dc"}, {file = "urllib3-2.5.0.tar.gz", hash = "sha256:3fc47733c7e419d4bc3f6b3dc2b4f890bb743906a30d56ba4a5bfa4bbff92760"}, @@ -1610,13 +1496,11 @@ files = [ [[package]] name = "uvicorn" version = "0.38.0" -requires_python = ">=3.9" -summary = "The lightning-fast ASGI server." -groups = ["default"] +summary = "" dependencies = [ - "click>=7.0", - "h11>=0.8", - "typing-extensions>=4.0; python_version < \"3.11\"", + "click", + "h11", + "typing-extensions; python_full_version < \"3.11\"", ] files = [ {file = "uvicorn-0.38.0-py3-none-any.whl", hash = "sha256:48c0afd214ceb59340075b4a052ea1ee91c16fbc2a9b1469cca0e54566977b02"}, @@ -1627,18 +1511,16 @@ files = [ name = "uvicorn" version = "0.38.0" extras = ["standard"] -requires_python = ">=3.9" -summary = "The lightning-fast ASGI server." -groups = ["default"] +summary = "" dependencies = [ - "colorama>=0.4; sys_platform == \"win32\"", - "httptools>=0.6.3", - "python-dotenv>=0.13", - "pyyaml>=5.1", + "colorama; sys_platform == \"win32\"", + "httptools", + "python-dotenv", + "pyyaml", "uvicorn==0.38.0", - "uvloop>=0.15.1; (sys_platform != \"cygwin\" and sys_platform != \"win32\") and platform_python_implementation != \"PyPy\"", - "watchfiles>=0.13", - "websockets>=10.4", + "uvloop; platform_python_implementation != \"PyPy\" and (sys_platform != \"cygwin\" and sys_platform != \"win32\")", + "watchfiles", + "websockets", ] files = [ {file = "uvicorn-0.38.0-py3-none-any.whl", hash = "sha256:48c0afd214ceb59340075b4a052ea1ee91c16fbc2a9b1469cca0e54566977b02"}, @@ -1648,10 +1530,7 @@ files = [ [[package]] name = "uvloop" version = "0.22.1" -requires_python = ">=3.8.1" -summary = "Fast implementation of asyncio event loop on top of libuv" -groups = ["default"] -marker = "(sys_platform != \"cygwin\" and sys_platform != \"win32\") and platform_python_implementation != \"PyPy\"" +summary = "" files = [ {file = "uvloop-0.22.1-cp310-cp310-macosx_10_9_universal2.whl", hash = "sha256:ef6f0d4cc8a9fa1f6a910230cd53545d9a14479311e87e3cb225495952eb672c"}, {file = "uvloop-0.22.1-cp310-cp310-macosx_10_9_x86_64.whl", hash = "sha256:7cd375a12b71d33d46af85a3343b35d98e8116134ba404bd657b3b1d15988792"}, @@ -1683,15 +1562,12 @@ files = [ [[package]] name = "virtualenv" version = "20.35.4" -requires_python = ">=3.8" -summary = "Virtual Python Environment builder" -groups = ["dev"] +summary = "" dependencies = [ - "distlib<1,>=0.3.7", - "filelock<4,>=3.12.2", - "importlib-metadata>=6.6; python_version < \"3.8\"", - "platformdirs<5,>=3.9.1", - "typing-extensions>=4.13.2; python_version < \"3.11\"", + "distlib", + "filelock", + "platformdirs", + "typing-extensions; python_full_version < \"3.11\"", ] files = [ {file = "virtualenv-20.35.4-py3-none-any.whl", hash = "sha256:c21c9cede36c9753eeade68ba7d523529f228a403463376cf821eaae2b650f1b"}, @@ -1701,11 +1577,9 @@ files = [ [[package]] name = "watchfiles" version = "1.1.1" -requires_python = ">=3.9" -summary = "Simple, modern and high performance file watching and code reload in python." -groups = ["default"] +summary = "" dependencies = [ - "anyio>=3.0.0", + "anyio", ] files = [ {file = "watchfiles-1.1.1-cp310-cp310-macosx_10_12_x86_64.whl", hash = "sha256:eef58232d32daf2ac67f42dea51a2c80f0d03379075d44a587051e63cc2e368c"}, @@ -1783,9 +1657,7 @@ files = [ [[package]] name = "websockets" version = "15.0.1" -requires_python = ">=3.9" -summary = "An implementation of the WebSocket Protocol (RFC 6455 & 7692)" -groups = ["default"] +summary = "" files = [ {file = "websockets-15.0.1-cp310-cp310-macosx_10_9_universal2.whl", hash = "sha256:d63efaa0cd96cf0c5fe4d581521d9fa87744540d4bc999ae6e08595a1014b45b"}, {file = "websockets-15.0.1-cp310-cp310-macosx_10_9_x86_64.whl", hash = "sha256:ac60e3b188ec7574cb761b08d50fcedf9d77f1530352db4eef1707fe9dee7205"}, diff --git a/pyproject.toml b/pyproject.toml index cf5c749..fa359ba 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -9,9 +9,9 @@ authors = [ ] dependencies = [ "pythonnet", - "madsci.node_module~=0.6.0", - "madsci.client~=0.6.0", - "madsci.common~=0.6.0", + "madsci.node_module~=0.8.0", + "madsci.client~=0.8.0", + "madsci.common~=0.8.0", ] requires-python = ">=3.10,<3.14" readme = "README.md" diff --git a/src/hidex_rest_node.py b/src/hidex_rest_node.py index df7010e..b92c136 100644 --- a/src/hidex_rest_node.py +++ b/src/hidex_rest_node.py @@ -95,7 +95,7 @@ def create_resources(self) -> None: """Create or attach to the resources for this node""" self.resource_client.create_resource_from_template( template_name="hidex.nest", - resource_name=f"{self.node_definition.node_name}.nest", + resource_name=f"{self.node_info.node_name}.nest", ) def shutdown_handler(self) -> None: From aea5c254312b377e7a9cd41eb5cc77ba57c216bb Mon Sep 17 00:00:00 2001 From: Casey Stone Date: Tue, 9 Jun 2026 11:08:10 -0500 Subject: [PATCH 14/14] added location template and intrinsic location --- src/hidex_rest_node.py | 43 ++++++++++++++++++++++++++++++++++++++++-- 1 file changed, 41 insertions(+), 2 deletions(-) diff --git a/src/hidex_rest_node.py b/src/hidex_rest_node.py index b92c136..9e5a844 100644 --- a/src/hidex_rest_node.py +++ b/src/hidex_rest_node.py @@ -5,7 +5,7 @@ import os import time from pathlib import Path, WindowsPath -from typing import Annotated +from typing import Annotated, ClassVar import clr from madsci.common.types.action_types import ( @@ -13,7 +13,11 @@ ActionSucceeded, ) from madsci.common.types.admin_command_types import AdminCommandResponse -from madsci.common.types.node_types import RestNodeConfig +from madsci.common.types.node_types import ( + NodeIntrinsicLocationDefinition, + NodeRepresentationTemplateDefinition, + RestNodeConfig, +) from madsci.common.types.resource_types import Slot from madsci.node_module.helpers import action from madsci.node_module.rest_node_module import RestNode @@ -53,6 +57,41 @@ class HidexNode(RestNode): module_version = "1.2.0" """Version of the Hidex Node module""" + # Location representation templates — registered automatically by template_handler() + location_representation_templates: ClassVar[ + list[NodeRepresentationTemplateDefinition] + ] = [ + NodeRepresentationTemplateDefinition( + template_name="hidex_carriage_repr", + default_values={"carriage_type": "standard", "capacity": 1}, + schema_def={ + "type": "object", + "properties": { + "capacity": { + "type": "integer", + "minimum": 1, + "description": "Number of plates the carriage can hold", + }, + }, + }, + required_overrides=[], + tags=["plate_reader", "carriage"], + version="1.0.0", + description="Hidex Sense carriage representation with capacity", + ), + ] + + # Intrinsic locations — auto-created on startup with '{node_name}.' prefix + intrinsic_locations: ClassVar[list[NodeIntrinsicLocationDefinition]] = [ + NodeIntrinsicLocationDefinition( + location_name="hidex_carriage", + description="Hidex Sense plate reader carriage.", + representation_template_name="hidex_carriage_repr", + resource_template_name="hidex.nest", + allow_transfers=True, + ), + ] + def startup_handler(self) -> None: """Called to (re)initialize the node. Opens a connection to the Hidex.""" self.initialize_resource_templates()