From a5aedff524ad99fe44218a5982a4a93f58fb9046 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Mon, 25 Jan 2021 12:07:31 -0600
Subject: [PATCH] Update Sequencing_Type to Experiment_Type
---
CHANGELOG.md | 3 ++-
workflow/conf/Replicate_For_Input_Bag.json | 2 +-
2 files changed, 3 insertions(+), 2 deletions(-)
diff --git a/CHANGELOG.md b/CHANGELOG.md
index c0b74db..c95af4e 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -1,4 +1,4 @@
-# v1.0.3
+# v2.0.0
**User Facing**
* Endness metadata "Single Read" changed to "Single End" in data-hub, pipeline updated to handle (#110) ("Single Read" still acceptable for backwards compatibility)
@@ -16,6 +16,7 @@
* Detect malformed fastq's (#107)
* Restrict sampled alignment process to use >32GB nodes on BioHPC (#108)
* Use nproc**-1** for alignment processes (#108)
+* Data-hub column title change from "Sequencing_Type" to "Experiment_Type" (#114)
*Known Bugs*
* Override params (inputBag, fastq, species) aren't checked for integrity
diff --git a/workflow/conf/Replicate_For_Input_Bag.json b/workflow/conf/Replicate_For_Input_Bag.json
index 842cf62..907ad88 100644
--- a/workflow/conf/Replicate_For_Input_Bag.json
+++ b/workflow/conf/Replicate_For_Input_Bag.json
@@ -19,7 +19,7 @@
"processor": "csv",
"processor_params": {
"output_path": "Experiment",
- "query_path": "/attribute/M:=RNASeq:Replicate/RID={rid}/(Experiment_RID)=(RNASeq:Experiment:RID)/Experiment_RID:=RID,Study_RID,Internal_ID,Name,Description,Experiment_Method,Sequencing_Type,Species,Specimen_Type,Molecule_Type,Pooled_Sample,Pool_Size,Markers,Cell_Count,Treatment_Protocol,Treatment_Protocol_Reference,Isolation_Protocol,Isolation_Protocol_Reference,Growth_Protocol,Growth_Protocol_Reference,Label_Protocol,Label_Protocol_Reference,Hybridization_Protocol,Hybridization_Protocol_Reference,Scan_Protocol,Scan_Protocol_Reference,Data_Processing,Value_Definition,Notes,Principal_Investigator,Consortium,Release_Date,RCT,RMT?limit=none"
+ "query_path": "/attribute/M:=RNASeq:Replicate/RID={rid}/(Experiment_RID)=(RNASeq:Experiment:RID)/Experiment_RID:=RID,Study_RID,Internal_ID,Name,Description,Experiment_Method,Experiment_Type,Species,Specimen_Type,Molecule_Type,Pooled_Sample,Pool_Size,Markers,Cell_Count,Treatment_Protocol,Treatment_Protocol_Reference,Isolation_Protocol,Isolation_Protocol_Reference,Growth_Protocol,Growth_Protocol_Reference,Label_Protocol,Label_Protocol_Reference,Hybridization_Protocol,Hybridization_Protocol_Reference,Scan_Protocol,Scan_Protocol_Reference,Data_Processing,Value_Definition,Notes,Principal_Investigator,Consortium,Release_Date,RCT,RMT?limit=none"
}
},
{
--
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