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sanger-pathogens / pymummer

Python3 module for running MUMmer and reading the output
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install failure,what should i do? #37

Open wlh1234 opened 1 year ago

wlh1234 commented 1 year ago

Collecting pymummer Using cached pymummer-0.11.0.tar.gz (8.2 kB) Preparing metadata (setup.py) ... error error: subprocess-exited-with-error

× python setup.py egg_info did not run successfully. │ exit code: 1 ╰─> [6 lines of output] Cannot install because some programs from the MUMer package not found. Checking MUMmer programs found in path: NOT FOUND nucmer NOT FOUND show-coords NOT FOUND show-snps NOT FOUND delta-filter [end of output]

note: This error originates from a subprocess, and is likely not a problem with pip. error: metadata-generation-failed

× Encountered error while generating package metadata. ╰─> See above for output.

note: This is an issue with the package mentioned above, not pip. hint: See above for details.

martinghunt commented 1 year ago

Mummer needs to be installed, so that these executables are in your $PATH: nucmer, show-coords, show-snps, delta-filter.

Mummer is available here: https://github.com/mummer4/mummer/releases