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assemblerflow / flowcraft

FlowCraft: a component-based pipeline composer for omics analysis using Nextflow. :whale::package:
GNU General Public License v3.0
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bwa gatk not found #235

Open Rohit-Satyam opened 1 year ago

Rohit-Satyam commented 1 year ago

Hi

I was trying to use bwa instead of bowtie2 But I get the following error

========= F L O W C R A F T =========
Build mode
version: 1.4.1
build: 02032019
=====================================
Checking pipeline for errors...
Resulting pipeline string:

trimmomatic fastqc bwa (spades | skesa pilon (abricate | prokka | chewbbaca))

The process 'bwa' is not available.
Hint: check the available processes by using the '-l' or '-L' flag.

Also gatk can not be found.