From 65040513604d2bc3b993ed287f39c02a1bdae344 Mon Sep 17 00:00:00 2001
From: Dominik Brilhaus <brilhaus@nfdi4plants.org>
Date: Wed, 19 Mar 2025 15:08:43 +0100
Subject: [PATCH] replace paths to arc root
---
arc-job.yml | 16 ++++++++--------
1 file changed, 8 insertions(+), 8 deletions(-)
diff --git a/arc-job.yml b/arc-job.yml
index f197ce5..9b36300 100644
--- a/arc-job.yml
+++ b/arc-job.yml
@@ -5,7 +5,7 @@
## Genome file to build kallisto Index
kallisto_IndexInput:
- class: File
- path: ../../studies/TalinumGenomeDraft/resources/Talinum.gm.CDS.nt.fa
+ path: ./studies/TalinumGenomeDraft/resources/Talinum.gm.CDS.nt.fa
format: edam:format_1929 # FASTA
## Fastq files to be mapped
@@ -15,32 +15,32 @@ kallisto_IndexInput:
kallisto_sampleRecord:
- readsOfOneSample:
- class: File
- path: ../../assays/RNASeq/dataset/DB_097_CAMMD_CAGATC_L001_R1_001.fastq.gz
+ path: ./assays/RNASeq/dataset/DB_097_CAMMD_CAGATC_L001_R1_001.fastq.gz
format: edam:format_1930
sampleName: 'DB_097'
- readsOfOneSample:
- class: File
- path: ../../assays/RNASeq/dataset/DB_163_reC3MD_GTGAAA_L001_R1_001.fastq.gz
+ path: ./assays/RNASeq/dataset/DB_163_reC3MD_GTGAAA_L001_R1_001.fastq.gz
format: edam:format_1930
sampleName: 'DB_163'
- readsOfOneSample:
- class: File
- path: ../../assays/RNASeq/dataset/DB_099_CAMMD_CTTGTA_L001_R1_001.fastq.gz
+ path: ./assays/RNASeq/dataset/DB_099_CAMMD_CTTGTA_L001_R1_001.fastq.gz
format: edam:format_1930
sampleName: 'DB_099'
- readsOfOneSample:
- class: File
- path: ../../assays/RNASeq/dataset/DB_103_CAMMD_AGTCAA_L001_R1_001.fastq.gz
+ path: ./assays/RNASeq/dataset/DB_103_CAMMD_AGTCAA_L001_R1_001.fastq.gz
format: edam:format_1930
sampleName: 'DB_103'
- readsOfOneSample:
- class: File
- path: ../../assays/RNASeq/dataset/DB_161_reC3MD_GTCCGC_L001_R1_001.fastq.gz
+ path: ./assays/RNASeq/dataset/DB_161_reC3MD_GTCCGC_L001_R1_001.fastq.gz
format: edam:format_1930
sampleName: 'DB_161'
- readsOfOneSample:
- class: File
- path: ../../assays/RNASeq/dataset/DB_165_re-C3MD_GTGAAA_L002_R1_001.fastq.gz
+ path: ./assays/RNASeq/dataset/DB_165_re-C3MD_GTGAAA_L002_R1_001.fastq.gz
format: edam:format_1930
sampleName: 'DB_165'
@@ -60,7 +60,7 @@ $namespaces:
isaSampleToRawDataSeq_arcPath:
class: Directory
- path: ../../
+ path: ./
isaSampleToRawDataSeq_assayName: "RNASeq"
isaSampleToRawDataSeq_outName: rnaseq-samples
isaSampleToRawDataSeq_startingNodeNum: 0
--
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