Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout (MAGeCK) is a computational tool to identify important genes from the recent genome-scale CRISPR-Cas9 knockout screens technology.
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I ran Mageck MLE pipeline in Mageck-VISPR but i got this error? #4
Error in job mageck_mle while creating output files results/test/mle.gene_summary.txt, results/test/mle.sgrna_summary.txt.
RuleException:
CalledProcessError in line 282 of /home/centos/Mageck-VISPR/test/Snakefile:
Command 'mageck mle --norm-method median --output-prefix results/test/mle --genes-var 0 --count-table results/count/all.count.txt --cnv-norm esc-testdata/CNV_A549.txt --threads 4 --control-sgrna esc-testdata/NonTarget.txt --design-matrix esc-testdata/designmatrix.txt 2> logs/mageck/test/mle.log' returned non-zero exit status 1.
File "/home/centos/Mageck-VISPR/test/Snakefile", line 282, in __rule_mageck_mle
File "/home/centos/anaconda3/envs/Mageck-VISPR/lib/python3.6/concurrent/futures/thread.py", line 56, in run
Error in job mageck_mle while creating output files results/test/mle.gene_summary.txt, results/test/mle.sgrna_summary.txt. RuleException: CalledProcessError in line 282 of /home/centos/Mageck-VISPR/test/Snakefile: Command 'mageck mle --norm-method median --output-prefix results/test/mle --genes-var 0 --count-table results/count/all.count.txt --cnv-norm esc-testdata/CNV_A549.txt --threads 4 --control-sgrna esc-testdata/NonTarget.txt --design-matrix esc-testdata/designmatrix.txt 2> logs/mageck/test/mle.log' returned non-zero exit status 1. File "/home/centos/Mageck-VISPR/test/Snakefile", line 282, in __rule_mageck_mle File "/home/centos/anaconda3/envs/Mageck-VISPR/lib/python3.6/concurrent/futures/thread.py", line 56, in run