Xinyu is processing ~100 samples with exome, rnaseq libraries. They are deep sequenced and errors of insufficient memory for several rules like fastqc, starens,fusion catcher, bwa etc.
SJHGS012411/SJHGS012411_X1 /data/khanlab/projects/processed_DATA/ngs_pipeline_SJHGS012411=SJHGS012411_X1=20220806_20220807_115058.log
135 Error in rule FASTQC:
136 Error executing rule FASTQC on cluster (jobid: 3, external: 45151750, jobscript: /vf/users/khanlab/projects/processed_DATA/.snakemake/tmp.o9iz19su/FASTQC.3). For error details see the cluster log and the log files of the involved rule(s
137 Error in rule FASTQC:
138 Error executing rule FASTQC on cluster (jobid: 3, external: 45165088, jobscript: /vf/users/khanlab/projects/processed_DATA/.snakemake/tmp.o9iz19su/FASTQC.3). For error details see the cluster log and the log files of the involved rule(s
139 Error in rule CircosLib:
140 Error executing rule CircosLib on cluster (jobid: 61, external: 45174031, jobscript: /vf/users/khanlab/projects/processed_DATA/.snakemake/tmp.o9iz19su/CircosLib.61). For error details see the cluster log and the log files of the involve
141 Error in rule seq2HLA:
142 Error executing rule seq2HLA on cluster (jobid: 48, external: 45151876, jobscript: /vf/users/khanlab/projects/processed_DATA/.snakemake/tmp.o9iz19su/seq2HLA.48). For error details see the cluster log and the log files of the involved ru
143 Error in rule TargetIntervals:
144 Error executing rule TargetIntervals on cluster (jobid: 127, external: 45176737, jobscript: /vf/users/khanlab/projects/processed_DATA/.snakemake/tmp.o9iz19su/TargetIntervals.127). For error details see the cluster log and the log files
145 Error in rule CircosLib:
146 Error executing rule CircosLib on cluster (jobid: 61, external: 45180679, jobscript: /vf/users/khanlab/projects/processed_DATA/.snakemake/tmp.o9iz19su/CircosLib.61). For error details see the cluster log and the log files of the involve
147 Error in rule seq2HLA:
148 Error executing rule seq2HLA on cluster (jobid: 48, external: 45182313, jobscript: /vf/users/khanlab/projects/processed_DATA/.snakemake/tmp.o9iz19su/seq2HLA.48). For error details see the cluster log and the log files of the involved ru
149 Error in rule BWA:
150 Error executing rule BWA on cluster (jobid: 120, external: 45152161, jobscript: /vf/users/khanlab/projects/processed_DATA/.snakemake/tmp.o9iz19su/BWA.120). For error details see the cluster log and the log files of the involved rule(s).
151 Error submitting jobscript (exit code 123):
Xinyu is processing ~100 samples with exome, rnaseq libraries. They are deep sequenced and errors of insufficient memory for several rules like fastqc, starens,fusion catcher, bwa etc.