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10XGenomics / vartrix

Single-Cell Genotyping Tool
MIT License
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Error writing out-matrix #52

Closed sylvia-science closed 3 years ago

sylvia-science commented 3 years ago

vartrix seems to finish running but then it has trouble writing the output.

Here is the command: ./vartrix - \ -v /disk2/Projects/Data/Bam/GL1003BM.vep.vcf \ -b /disk2/Projects/Data/Bam/GL1003BM.bam \ -f /disk2/Projects/Data/Bam/refdata-cellranger-GRCh38-1.2.0.fasta \ -c /disk2/Projects/Data/Bam/GL1003BM_out_cell_barcodes_filter.csv \ -o /disk2/Projects/Code/vartrix/vartrix_dir/output/

And here is the error:

Vartrix error. v1.1.14. Error: Error writing out-matrix Info: caused by Is a directory (os error 21)

stack backtrace: 0: failure::backtrace::Backtrace::new at /root/.cargo/registry/src/github.com-1ecc6299db9ec823/failure-0.1.5/src/backtrace/internal.rs:44

::default at /root/.cargo/registry/src/github.com-1ecc6299db9ec823/failure-0.1.5/src/backtrace/mod.rs:125 1: vartrix::_main at /root/.cargo/registry/src/github.com-1ecc6299db9ec823/failure-0.1.5/src/error/error_impl.rs:19 2: vartrix::main at src/main.rs:154 3: std::rt::lang_start::{{closure}} at /rustc/b8cedc00407a4c56a3bda1ed605c6fc166655447/src/libstd/rt.rs:67 4: main 5: __libc_start_main 6:
sylvia-science commented 3 years ago

This issue was just that I had to specify an output file, not just the folder.