fix: Add missing samplesheet (#165)

* fix/docs: Add missing example samplesheet * chore: Update minimum nf version
beiko-lab · Sep 18, 2023 · 758422f · 758422f
1 parent b097f9b
commit 758422f
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diff --git a/README.md b/README.md
@@ -2,8 +2,7 @@
 [![GitHub Actions CI (test) Status](https://github.com/beiko-lab/arete/workflows/nf-test%20CI/badge.svg)](https://github.com/beiko-lab/arete/actions?query=workflow%3A%22nf-test+CI%22)
 [![documentation status](https://github.com/beiko-lab/arete/workflows/docs/badge.svg)](https://beiko-lab.github.io/arete/)
 
-[![Nextflow](https://img.shields.io/badge/nextflow%20DSL2-%E2%89%A521.03.0--edge-23aa62.svg?labelColor=000000)](https://www.nextflow.io/)
-[![run with conda](http://img.shields.io/badge/run%20with-conda-3EB049?labelColor=000000&logo=anaconda)](https://docs.conda.io/en/latest/)
+[![Nextflow](https://img.shields.io/badge/nextflow%20DSL2-%E2%89%A522.10.6-23aa62.svg?labelColor=000000)](https://www.nextflow.io/)
 [![run with docker](https://img.shields.io/badge/run%20with-docker-0db7ed?labelColor=000000&logo=docker)](https://www.docker.com/)
 [![run with singularity](https://img.shields.io/badge/run%20with-singularity-1d355c.svg?labelColor=000000)](https://sylabs.io/docs/)
 

diff --git a/assets/samplesheet.csv b/assets/samplesheet.csv
@@ -0,0 +1,3 @@
+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_PAIRED_END,/path/to/fastq/files/AEG588A1_S1_L002_R1_001.fastq.gz,/path/to/fastq/files/AEG588A1_S1_L002_R2_001.fastq.gz
diff --git a/nextflow.config b/nextflow.config
@@ -199,7 +199,7 @@ manifest {
     homePage        = 'https://github.com/beiko-lab/arete'
     description     = 'AMR/VF LGT-focused bacterial genomics workflow'
     mainScript      = 'main.nf'
-    nextflowVersion = '!>=21.04.0'
+    nextflowVersion = '!>=22.10.6'
     version = '0.9'
 }