richard-burhans

Results 5 comments of richard-burhans

/usr/local/bin/run_segalign: line 60: segalign: command not found

If you use conda, you can install SegAlign using my [bioconda](https://bioconda.github.io/) recipe. You would use a command like the following: `conda create --name segalign --channel conda-forge --channel bioconda --channel defaults...

Error: cudaMalloc of 256 bytes for sub_mat failed with error " the provided PTX was compiled with an unsupported toolchain. "

If you use conda, you can install SegAlign using my [bioconda](https://bioconda.github.io/) recipe. You would use a command like the following: `conda create --name segalign --channel conda-forge --channel bioconda --channel defaults...

Command-line option for cpu count

If anyone else is having this issue, my workaround is to set the `OMP_THREAD_LIMIT` environment variable before running SegAlign as documented [here](https://www.gnu.org/software/coreutils/manual/html_node/nproc-invocation.html)

run_segalign crashes on human-chimp (and exits 0!)

> This is with [d1a73a0](https://github.com/gsneha26/SegAlign/commit/d1a73a0c9169d5517c9316d9bdc68fd52f63e885) on a ubuntu 18.04 p3.16xlarge AWS instance > > It appears to work with [d5fd293](https://github.com/gsneha26/SegAlign/commit/d5fd29300b8c04f1372c96b5eb11f015d9a1a100). So it's definitely a regression related to changes this June...

Output file size not correct

Did you happen to pass SegAlign the `--scoring` option? If so, my [PR](https://github.com/gsneha26/SegAlign/pull/64) should fix this issue.