From 9ca598fb23bdd7860498cf1b214f1e480ffe1a75 Mon Sep 17 00:00:00 2001
From: Melvin Alappat <melvin.alappat@unibas.ch>
Date: Wed, 1 Dec 2021 13:36:16 +0100
Subject: [PATCH] feat: nextflow workflow for issue 4
---
src/RIblast_process2.nf | 25 +++++++++++++++++++++++++
1 file changed, 25 insertions(+)
create mode 100644 src/RIblast_process2.nf
diff --git a/src/RIblast_process2.nf b/src/RIblast_process2.nf
new file mode 100644
index 0000000..66f1017
--- /dev/null
+++ b/src/RIblast_process2.nf
@@ -0,0 +1,25 @@
+#!/usr/bin/env nextflow
+
+params.transcripts = "$baseDir/Docker-Files/transcript3.fasta"
+params.primers = "$baseDir/Docker-Files/primer.fasta"
+
+log.info """\
+ R I B L A S T P I P E L I N E
+ ===================================
+ transcripts: ${params.transcripts}
+ primers : ${params.primers}
+ """
+ .stripIndent()
+
+process RIblast_interaction {
+
+ input:
+ path transcript from params.transcripts
+ path primer from params.primers
+
+ script:
+ """
+ RIblast db -i $transcript -o /RIblast/test_db
+ RIblast ris -i $primer -o /RIblast/Energies.txt -d /RIblast/test_db
+ """
+}
--
GitLab