Package Details: emboss 6.6.0-3

Git Clone URL: https://aur.archlinux.org/emboss.git (read-only, click to copy)
Package Base: emboss
Description: A collection of molecular biology applications
Upstream URL: http://emboss.sourceforge.net/
Licenses: GPL2
Submitter: Allan
Maintainer: mschu
Last Packager: mschu
Votes: 18
Popularity: 0.004136
First Submitted: 2008-12-28 12:20
Last Updated: 2020-05-11 20:54

Dependencies (8)

Required by (0)

Sources (1)

Latest Comments

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Rhinoceros commented on 2020-05-11 07:57

I feel like history is repeating itself, but…

Like the two previous commentators (from over two years ago now!), install failed because installation of /usr/bin/wordcount conflicts with texlive-latexextra. IMO there really shouldn't be conflicts with official packages, especially when it's something as common as this.

I fixed it by just installing /usr/bin/wordcount under a different name:

mv "$pkgdir"/usr/bin/{,emboss_}wordcount

ironcyborg commented on 2020-02-10 14:35

The file conflict between this and 'texlive-latexextra' on '/usr/bin/wordcount' is unfortunately still present. Any suggestion?

anadon commented on 2018-04-30 22:24

There is a file conflict between this and 'texlive-latexextra' on '/usr/bin/wordcount' which needs to be addressed.

mschu commented on 2018-03-02 10:21

emboss now puts its .h files in /usr/include/emboss/*. This should solve all conflicting headers, and libs work on my machine.

anadon commented on 2018-02-28 18:29

@mschu Please merge in previous commenter's fixes for this package. But this doesn't fully fix the problem.

Rhinoceros commented on 2016-09-05 06:35

Like two previous commentators, install failed because installation of /usr/bin/showdb conflicts with sqlite. IMO there really shouldn't be conflicts with official packages, especially when it's something as common as sqlite.

I fixed it by just installing /usr/bin/showdb under a different name. IMO it shouldn't be in `/opt`, because there will still be problems with conflicting binaries in $PATH, although @antony's suggestion is not bad.


--- emboss.orig/PKGBUILD 2016-04-25 19:10:09.000000000 +1000
+++ emboss/PKGBUILD 2016-09-05 16:09:49.756095544 +1000
@@ -30,4 +30,5 @@

make DESTDIR="$pkgdir" install
rm -f "$pkgdir/usr/include/{pcre,pcreposix}.h"
+ mv "$pkgdir"/usr/bin/showdb{,-emboss}
}

slackalaxy commented on 2016-06-17 10:29

hobbypunk,

I maintain EMBOSS and EMBASSY for Slackware at SlackBuilds.org and I uploaded their sources to SF here:
https://sourceforge.net/projects/sboppetrov/files/EMBOSS/

The link you provided may not be active in the near future.

-Petar

anntzer commented on 2016-05-05 17:38

This currently conflicts with the widely used sqlite because of the presence of /usr/bin/showdb.

Because this package provides so many executables in /usr/bin, perhaps it would make sense to rename them as /usr/bin/emboss-*?

hobbypunk commented on 2015-12-09 22:53

please update the link to:
http://www.student.oulu.fi/~ppetrov/source/EMBOSS-6.6.0/EMBOSS-6.6.0.tar.gz
the md5sum is the same ;)

hobbypunk commented on 2015-10-21 19:57

Hey, there are 2 little problems with your PKGBUILD, the source is offline, here is one that works "http://science-annex.org/pub/emboss/" and you should switch from "/usr" to "/opt/emboss", without the showdb file conflicts with showdb from sqlite