From 7996e983ff2ea0b59f9dd230d096937d8782a515 Mon Sep 17 00:00:00 2001
From: nservant <nicolas.servant@curie.fr>
Date: Fri, 6 May 2022 15:57:32 +0200
Subject: [PATCH] [TEST] move samplesheet to assets for test
---
README.md | 2 +-
assets/samplesheet.csv | 3 +--
2 files changed, 2 insertions(+), 3 deletions(-)
diff --git a/README.md b/README.md
index 12b1e48..6f3ba21 100644
--- a/README.md
+++ b/README.md
@@ -25,7 +25,7 @@ On release, automated continuous integration tests run the pipeline on a full-si
1. Read QC ([`FastQC`](https://www.bioinformatics.babraham.ac.uk/projects/fastqc/))
2. Hi-C data processing
- 1. with [`HiC-Pro`](https://github.com/nservant/HiC-Pro)
+ 1. [`HiC-Pro`](https://github.com/nservant/HiC-Pro)
1. Mapping using a two steps strategy to rescue reads spanning the ligation
sites ([`bowtie2`](http://bowtie-bio.sourceforge.net/bowtie2/index.shtml))
2. Detection of valid interaction products
diff --git a/assets/samplesheet.csv b/assets/samplesheet.csv
index 5f653ab..e699919 100644
--- a/assets/samplesheet.csv
+++ b/assets/samplesheet.csv
@@ -1,3 +1,2 @@
sample,fastq_1,fastq_2
-SAMPLE_PAIRED_END,/path/to/fastq/files/AEG588A1_S1_L002_R1_001.fastq.gz,/path/to/fastq/files/AEG588A1_S1_L002_R2_001.fastq.gz
-SAMPLE_SINGLE_END,/path/to/fastq/files/AEG588A4_S4_L003_R1_001.fastq.gz,
+SRR4292758,https://github.com/nf-core/test-datasets/raw/hic/data/SRR4292758_00_R1.fastq.gz,https://github.com/nf-core/test-datasets/raw/hic/data/SRR4292758_00_R2.fastq.gz
--
GitLab