caveman mstep with error: split_access_get_section_from_indexv Error opening split list file.
dongqing7 opened this issue · comments
Hello,
I'm using 1.11.0, and followed the “Processing flow” in the main page. When running the command after:
bin/caveman setup -t testData/testing_mt.bam -n testData/testing_wt.bam -r testData/ref.fai -g testData/ign.test -f results/
bin/caveman split -i 1 -f caveman.cfg.ini
The command:
bin/caveman mstep -f caveman.cfg.ini -i 1
throw the error meg:
[ERROR] (src/split_access.c: split_access_get_section_from_index:50 errno: No such file or directory) Error opening split list file.
[ERROR] (src/mstep.c: mstep_main:193 errno: None) Error fetching region from split file.
Segmentation fault (core dumped)
It seemed that the code in split_access.c didn't combined the info -i. Is there something wrong with my parameters?
@dongqing7
Do you have the splitList.1 file present?
Do you have a file named splitList present (created by merging the outputs from the split step)?
Thank you for reply. No, I found that splitList.1 file should be created manually. Now the tool work nice! Thank you for great work!