Prep 3.0.0 indev

CHANGELOG.md

+# v3.0.0
+**User Facing**
+* 
+
+**Background**
+
+*Known Bugs*
+* Vizapp does not yet work for Astrocyte
+* Running in CLI: to set --fastq path of file/s needs to be in quotes
+
 # v2.2.0
 **User Facing**
 * Add cellranger version 4.0.0
@@ -10,7 +20,6 @@
 * Vizapp does not yet work for Astrocyte
 * Running in CLI: to set --fastq path of file/s needs to be in quotes
 
-
 # v2.1.1
 **User Facing**
 * Check Design File for spaces in name and file contents

workflow/main.nf

@@ -64,7 +64,7 @@ if (params.astrocyte) {
 params.genomeLocationFull = params.genomeLocation+params.genome
 
 // Define variables from input
-pipelineVersion = "2.2.0"
+pipelineVersion = "3.0.0_indev"
 name = params.name
 designLocation = Channel
   .fromPath(params.designFile)

workflow/nextflow.config

@@ -48,6 +48,6 @@ manifest {
   homePage = 'https://git.biohpc.swmed.edu/BICF/Astrocyte/cellranger_count'
   description = 'This pipeline is a wrapper for the cellranger count tool from 10x Genomics. It takes fastq files from 10x Genomics Single Cell Gene Expression libraries, performs alignment, filtering, barcode counting, and UMI counting. It uses the Chromium cellular barcodes to generate gene-barcode matrices, determine clusters, and perform gene expression analysis.'
   mainScript = 'main.nf'
-  version = '2.2.0'
+  version = '4.0.0_indev'
   nextflowVersion = '>=0.31.0'
 }