Presets stopped working

isovic / graphmap

GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/ncomms11307.html Note: This was the original repository which will no longer be officially maintained. Please use the new official repository here:

https://github.com/lbcb-sci/graphmap2

MIT License

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Presets stopped working #28

Closed andreas-wilm closed 7 years ago

andreas-wilm commented 8 years ago

Presets (e.g. -x illumina) translate into option -w which was removed:

graphmap align -x illumina ...
ERROR: Unknown parameter '-w'.

Andreas

PS: version 0.3.0 commit 1d16f07

andreas-wilm commented 7 years ago

Just replacing '-x illumina' with 'align' gives very different results. I have 16S sequences that do not match anything in a huge database with 0.3.0 as opposed to 0.2.2

isovic commented 7 years ago

Hi Andreas, thanks for the report! I'll get to it soon - my time-clench is finally subsiding.

andreas-wilm commented 7 years ago

Cool. For my reference: https://github.com/CSB5/GERMS_16S_pipeline/issues/14

isovic commented 7 years ago

Hi Andreas, this should be resolved now in the newest release. Try git pull; make modules; make. Thanks for reporting this! Best regards, Ivan.