Package Details: mummer 4.0.0rc1-2

Git Clone URL: https://aur.archlinux.org/mummer.git (read-only, click to copy)
Package Base: mummer
Description: MUMmer is a program for rapidly aligning large genomes
Upstream URL: http://mummer.sourceforge.net
Licenses: PerlArtistic
Replaces: mummer64
Submitter: Synchronicity
Maintainer: sukanka (BioArchLinuxBot)
Last Packager: sukanka
Votes: 5
Popularity: 0.000000
First Submitted: 2012-06-16 02:01 (UTC)
Last Updated: 2022-06-27 11:12 (UTC)

Dependencies (4)

Required by (0)

Sources (1)

Latest Comments

micwoj92 commented on 2020-08-30 23:14 (UTC)

kloetzl, do you plan on updating this to 4.0.0 beta?

Synchronicity commented on 2020-04-03 03:38 (UTC)

kloetzl, I've disowned this package since I'm not using it anymore and don't have time to update it. If you're interested in fixing and using it, feel free to adopt it!

kloetzl commented on 2020-04-02 09:19 (UTC) (edited on 2020-04-02 11:08 (UTC) by kloetzl)

There seem to be some perl issues:

At installation: WARNING: '/usr/lib/perl5/site_perl' contains data from at least 1 packages which will NOT be used by the installed perl interpreter.

mummer works, but nucmer doesn't: Can't locate Foundation.pm in @INC (you may need to install the Foundation module) (@INC contains: /usr/lib/mummer/scripts /usr/lib/perl5/5.30/site_perl /usr/share/perl5/site_perl /usr/lib/perl5/5.30/vendor_perl /usr/share/perl5/vendor_perl /usr/lib/perl5/5.30/core_perl /usr/share/perl5/core_perl) at /usr/bin/nucmer line 19. BEGIN failed--compilation aborted at /usr/bin/nucmer line 19.

edit: The missing script can be found here: https://github.com/garviz/MUMmer/blob/master/scripts/Foundation.pm

benwbooth commented on 2019-08-09 22:40 (UTC)

I made an AUR package called mummer64 which builds mummer with 64 bits. It also fixes some perl code in mummerplot which caused it not to run on newer perl versions.

pdimens commented on 2019-06-18 14:55 (UTC)

in the PKGBUILD, make should be replaced with make clean followed by make CPPFLAGS="-O3 -DSIXTYFOURBITS" as per the instructions here https://sourceforge.net/p/mummer/mailman/mummer-help/thread/AANLkTik555sFkzTEvIONovJt1_0yYuuQzoalzrF6-wHt@mail.gmail.com/ to compile in 64 bit.

23| make clean 24| make CPPFLAGS="-O3 -DSIXTYFOURBITS"