Cannot split into 12 (16) pieces with size of 6246233965 and named them as /oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/APO-noD-R_unmapped.sam. Fatal error. Aborted.
Closed this issue · 2 comments
algaebrown commented
Hi
I encounter this error when running
CIRIquant -t 4 -1 output/fastqs/APO-1-R_1.Tr.fq.gz -2 output/fastqs/APO-1-R_2.Tr.fq.gz --config ciriconfig_full.yaml --library-type 2 -o output/ -p APO-1-R -t 12
log:
[Mon May 30 18:19:05 2022] Loading reference
[Mon May 30 18:19:39 2022] Requesting system to split SAM into 12 pieces
[Mon May 30 18:19:05 2022] CIRI begins running
[Mon May 30 18:19:05 2022] Loading reference
[Mon May 30 18:19:39 2022] Requesting system to split SAM into 12 pieces
Divided SAM sizes:
/oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/HuR-1-R_unmapped.samaa 6136420186
/oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/HuR-1-R_unmapped.samab 6136420186
/oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/HuR-1-R_unmapped.samac 6136420186
/oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/HuR-1-R_unmapped.samad 6136420186
/oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/HuR-1-R_unmapped.samae 6136420186
/oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/HuR-1-R_unmapped.samaf 6136420186
/oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/HuR-1-R_unmapped.samag 6136420186
/oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/HuR-1-R_unmapped.samah 6136420186
/oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/HuR-1-R_unmapped.samai 6136420186
/oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/HuR-1-R_unmapped.samaj 6136420186
/oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/HuR-1-R_unmapped.samak 6136420186
/oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/HuR-1-R_unmapped.samal 6136420184
/oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/HuR-1-R_unmapped.samam 4602315006
/oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/HuR-1-R_unmapped.saman 4602315423
/oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/HuR-1-R_unmapped.samao 4602315554
/oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/HuR-1-R_unmapped.samap 4602314573
Cannot split /oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/HuR-1-R_unmapped.sam into 12 (16) pieces with size of 6136420186 and named them as /oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/HuR-1-R_unmapped.sam.
Fatal error. Aborted.
please help, thanks. I am pretty suer I have write access to the output dir
Kevinzjy commented
Hi @algaebrown , the /oasis/tscc/scratch/hsher/circSTAMP_pipe/output/circ/HuR-1-R_unmapped.sama[m-p] seems to be the temporary files from your last run. Could you delete the output directory and run CIRIquant again?.
algaebrown commented
Got it. Thanks!!