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Package Details: emboss 6.6.0-3
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Git Clone URL: | https://aur.archlinux.org/emboss.git (read-only, click to copy) |
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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: | 20 |
Popularity: | 0.003149 |
First Submitted: | 2008-12-28 12:20 (UTC) |
Last Updated: | 2020-05-11 20:54 (UTC) |
Dependencies (8)
- gd (gd-git)
- java-runtime (java-gcj-compat, jre10, jdk12-openj9-bin, zulu-12-bin, jre6, jre12, server-jre, jdk13-openj9-bin, jdk9-openj9-bin, jdk10, jdk10-openj9-bin, jdk14-openj9-bin, jdk7, jre7, zulu-14-bin, amazon-corretto-15, zulu-embedded-jdk8, sapmachine-jdk-bin, amazon-corretto-16, jdk8-graalvm-bin, jdk16-graalvm-bin, jre8-openjdk-shenandoah, zulu-16-bin, jdk16-adoptopenjdk, jdk16-microsoft-openjdk, jdk11-msopenjdk-bin, jdk18-beta-temurin, jdk8-arm, jre17-jetbrains, liberica-jdk-11-bin, liberica-jdk-11-lite-bin, liberica-jre-11-bin, jre11-jetbrains-imfix, java-openjdk-loom-ea-bin, jdk7-j9-bin, jdk7r1-j9-bin, jdk8-j9-bin, jdk11-j9-bin, jre11-jbr-xdg, jre16-openjdk, jre13-openjdk, jre14-openjdk, jre-bcl, jdk-bcl, amazon-corretto-18, zulu-18-bin, zulu-13-bin, jre15, jre14, jre13, jre16, bishengjdk-17, bishengjre-17, jdk-arm, jdk11-openj9-bin, jdk-openj9-bin, jre-jbr-xdg, jre18-openjdk, jdk18-openj9-bin, jdk-android-studio, amazon-corretto-19-bin, zulu-19-bin, jdk19-graalvm-bin, liberica-jre-11-full-bin, jdk19-graalvm-ee-bin, jdk13-openjdk-bin, zulu-embedded-jdk, jre8-openjdk-xdg, jre17-openjdk-xdg, jre15-openjdk, zulu-embedded-jdk11, liberica-jre-8-full-bin, jdk11-graalvm-bin, jdk18-temurin, jre19-openjdk, jdk11-microsoft-openjdk, jre-openj9, jdk11-graalvm-ee-bin, zulu-jre-fx-bin, jre17-jetbrains-imfix, jdk11-openjdk-dcevm, jre12-openjdk, jdk8-dragonwell-extended, jdk-jetbrains, jdk8-dragonwell-extended-bin, jdk8-dragonwell-standard-bin, jdk11-dragonwell-extended-bin, jdk11-dragonwell-standard-bin, jdk11-jetbrains-bin, jdk8-openj9-bin, jdk17-dragonwell-standard-bin, amazon-corretto-8, zulu-8-bin, zulu-20-bin, zulu-jdk-fx-bin, jdk-temurin, jdk17-graalvm-ee-bin, jdk20-graalvm-ee-bin, liberica-jdk-8-full-bin, jdk20-graalvm-bin, jdk17-graalvm-bin, mandrel-bin, jre-lts, jdk17-zulu-prime-bin, jdk8-graalvm-ee-bin, jdk8-aarch64, jdk8-temurin, jre17, jre8-adoptopenjdk, liberica-jdk-11-full-bin, liberica-jdk-17-full-bin, amazon-corretto-20-bin, amazon-corretto-17, zulu-15-bin, jdk8, jre8, jdk21-jetbrains-bin, jre21-jetbrains-imfix, amazon-corretto-11, jdk17-jetbrains-bin, jdk-microsoft-openjdk, jdk17-openj9-bin, jdk20-openj9-bin, java-openjdk-bin, zulu-21-bin, amazon-corretto-21-bin, jre11, liberica-jdk-full-bin, jre-openjdk-xdg, java-openjdk-ea-bin, jdk11-temurin, jdk17-temurin, jre, zulu-11-bin, zulu-17-bin, jre-jetbrains, jre-openjdk, jre11-openjdk, jre17-openjdk, jre8-openjdk)
- pcre (pcre-svn)
- java-environment (java-gcj-compat, zulu-10-bin, jdk12-openj9-bin, zulu-12-bin, jdk12, jdk13-openj9-bin, jdk9-openj9-bin, jdk10, jdk10-openj9-bin, jdk14-openj9-bin, jdk7, zulu-14-bin, amazon-corretto-15, zulu-embedded-jdk8, sapmachine-jdk-bin, amazon-corretto-16, jdk8-graalvm-bin, jdk16-graalvm-bin, jdk8-openjdk-shenandoah, zulu-16-bin, jdk16-adoptopenjdk, jdk16-microsoft-openjdk, jdk11-msopenjdk-bin, jdk18-beta-temurin, jdk8-arm, jdk17-jetbrains, liberica-jdk-11-bin, liberica-jdk-11-lite-bin, liberica-jre-11-bin, jdk11-jetbrains-imfix, java-openjdk-loom-ea-bin, jdk7-j9-bin, jdk7r1-j9-bin, jdk8-j9-bin, jdk11-j9-bin, jdk11-jbr-xdg, jdk16-openjdk, jdk13-openjdk, jdk14-openjdk, jdk-bcl, amazon-corretto-18, zulu-18-bin, zulu-13-bin, bishengjdk-17, jdk-arm, jdk11-openj9-bin, jdk-openj9-bin, jdk-jbr-xdg, jdk18-openjdk, jdk18-openj9-bin, jdk-android-studio, amazon-corretto-19-bin, zulu-19-bin, jdk19-graalvm-bin, liberica-jre-11-full-bin, jdk19-graalvm-ee-bin, jdk13-openjdk-bin, zulu-embedded-jdk, jabba-bin, jdk8-openjdk-xdg, jdk17-openjdk-xdg, jdk15-openjdk, zulu-embedded-jdk11, liberica-jre-8-full-bin, jdk11-graalvm-bin, jdk18-temurin, jdk19-openjdk, jdk11-microsoft-openjdk, jdk-openj9, jdk11-graalvm-ee-bin, jdk17-jetbrains-imfix, jdk11-openjdk-dcevm, jdk12-openjdk, jdk8-dragonwell-extended, jdk-jetbrains, jdk8-dragonwell-extended-bin, jdk8-dragonwell-standard-bin, jdk11-dragonwell-extended-bin, jdk11-dragonwell-standard-bin, jdk11-jetbrains-bin, jdk8-openj9-bin, jdk17-dragonwell-standard-bin, amazon-corretto-8, zulu-8-bin, zulu-20-bin, zulu-jdk-fx-bin, jdk-temurin, jdk17-graalvm-ee-bin, jdk20-graalvm-ee-bin, liberica-jdk-8-full-bin, jdk20-graalvm-bin, jdk17-graalvm-bin, mandrel-bin, jdk-lts, jdk17-zulu-prime-bin, jdk8-graalvm-ee-bin, jdk8-aarch64, jdk8-temurin, jdk8-adoptopenjdk, liberica-jdk-11-full-bin, liberica-jdk-17-full-bin, amazon-corretto-20-bin, amazon-corretto-17, zulu-15-bin, jdk8, jdk21-jetbrains-bin, jdk21-jetbrains-imfix, amazon-corretto-11, jdk17-jetbrains-bin, jdk-microsoft-openjdk, jdk17-openj9-bin, jdk20-openj9-bin, java-openjdk-bin, zulu-21-bin, amazon-corretto-21-bin, jdk11, liberica-jdk-full-bin, jdk-openjdk-xdg, java-openjdk-ea-bin, jdk11-temurin, jdk17-temurin, jdk, zulu-11-bin, zulu-17-bin, jre-jetbrains, jdk-openjdk, jdk11-openjdk, jdk17-openjdk, jdk8-openjdk) (make)
- libmariadbclient (libmysqlclient55, libmysqlclient56, mariadb-libs-git, libmysqlclient57, libmysqlclient, libmysqlclient80, mariadb-libs) (make)
- postgresql-libs (postgresql-libs-9.5, postgresql-libs-9.4, postgresql-libs-9.6, postgresql-libs-11, postgresql-libs-10, postgresql-libs-12, postgresql-lts-libs, postgresql-src-libs, postgresql-libs-git, postgresql-beta-libs, postgresql13-libs) (make)
- libmariadbclient (libmysqlclient55, libmysqlclient56, mariadb-libs-git, libmysqlclient57, libmysqlclient, libmysqlclient80, mariadb-libs) (optional)
- postgresql-libs (postgresql-libs-9.5, postgresql-libs-9.4, postgresql-libs-9.6, postgresql-libs-11, postgresql-libs-10, postgresql-libs-12, postgresql-lts-libs, postgresql-src-libs, postgresql-libs-git, postgresql-beta-libs, postgresql13-libs) (optional)
Latest Comments
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slackalaxy commented on 2022-03-15 17:41 (UTC) (edited on 2022-03-15 17:47 (UTC) by slackalaxy)
hi guys, to avoid emboss installing binaries that conflict with something else, you can always install them to a custom location, e.g.
/usr/lib/emboss/bin
, by passing this at compile time:--bindir=/usr/lib/emboss/bin
Simply renaming them will make them lost for
wossname
and jEmboss. To make jEmboss aware of it, you shouldsed
a few lines injemboss/resources/jemboss.properties
after compilation is done. I use Crux at the moment, and I do this:for more info, here's my Pkgfile: https://github.com/slackalaxy/crux-ports/blob/main/scientific/emboss/Pkgfile
hope this is useful
-petar
Rhinoceros commented on 2020-05-11 07:57 (UTC)
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 withtexlive-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:ironcyborg commented on 2020-02-10 14:35 (UTC)
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 (UTC)
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 (UTC)
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 (UTC) (edited on 2018-02-28 19:34 (UTC) by anadon)
@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 (UTC)
slackalaxy commented on 2016-06-17 10:29 (UTC)
anntzer commented on 2016-05-05 17:38 (UTC)
hobbypunk commented on 2015-12-09 22:53 (UTC)
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