Comments (3)
Malfoy
commented on May 29, 2024
bcalm -in ecoli.fa -kmer-size 17 -abundance-min 1 -out 17
The command line used
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rchikhi
commented on May 29, 2024
can't reproduce with latest version.
try this:
git pull
cd gatb-core && git pull
cd ../build && make -j 8
./bcalm -in NC_000913.fa -kmer-size 17 -abundance-min 1
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rchikhi
commented on May 29, 2024
no activity since 1 year, closing this but do let me know next time it segfaults!
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Related Issues (20)
- new release soon? HOT 2
- Running bcalm raises error: `cannot create a union-find data structure, too many elements.` HOT 6
- error: 'predecessors' following the 'template' keyword does not refer to a template HOT 8
- Error: libc++abi.dylib: terminating with uncaught exception of type std::out_of_range: basic_string HOT 5
- Compiling bcalm causes trouble when no .git repository is found HOT 1
- Output of bcalm2 similar to minia 3.2.1 unitigs? HOT 2
- Memory error with many reference genomes as input HOT 16
- High frequency of nodes with degree of two with length = 2k-1 HOT 2
- .fa files contain lowercase `km` instead of the documented uppercase `KM` HOT 3
- bcalm 2.2.1 on conda for Mac OS X produces incorrect cDBG (the zombie bug returns!!) HOT 12
- Add better input parsing HOT 1
- Improve error message for bad fasta input HOT 1
- Apparently bcalm crashes with very large k's (4096) HOT 1
- bcalm -version return code 1 to shell
- Glue is too strong, because glue files are not deleted.
- insert unitig disregarding the reverse complement HOT 1
- Option `-out-dir` is not used ? HOT 1
- bug report on a metagenomics dataset HOT 3
- Add header description with `-all-abundance-counts` HOT 2
- Is the output file reproducible? HOT 2
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