Comments (4)
gsneha26
commented on June 11, 2024
There was some error with using 'faSplit' without byname option to split into chromosome-wise files. I have now replaced it with csplit command in the bash script. The changes have been committed to the master branch.
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glennhickey
commented on June 11, 2024
Did you try the command line and data I pasted above? It runs through now but produces no output.
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gsneha26
commented on June 11, 2024
I did try it and a cigar output was produced.
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glennhickey
commented on June 11, 2024
You are right, sorry. I must not have rebuilt/reinstalled properly.
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Related Issues (20)
- run_segalign_repeat_masker can fail without error code HOT 1
- Error in LASTZ process! HOT 1
- segalign_repeat_masker runs out of memory on kangaroo rat HOT 2
- couldn't find boost HOT 7
- Running on multi-fasta HOT 2
- "grep: *.err" and "m: cannot remove '*.segments'" errors HOT 2
- FAILURE: extra segments in file HOT 4
- SegAlign/progressivecactus errors on LSF HOT 1
- run_segalign_repeat_masker file HOT 2
- cudaErrorIllegalAddress: an illegal memory access was encountered HOT 1
- stdbuf: failed to run command ‘segalign’: No such file or directory HOT 2
- error during cmake HOT 1
- segalign_repeat_masker crashes HOT 3
- segaling_repeat_masker still crashes HOT 7
- segalign crashes while aligning final against final reference block HOT 1
- run_segalign crashes on human-chimp (and exits 0!) HOT 2
- SegAlign crashes while running cactus on Terra HOT 3
- thrust::system::system_error | CUDA free failed: cudaErrorCudartUnloading
- Error: cudaMalloc of 256 bytes for sub_mat failed with error " the provided PTX was compiled with an unsupported toolchain. " HOT 1
- /usr/local/bin/run_segalign: line 60: segalign: command not found HOT 1
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