Package Details: emboss 6.6.0-1

Git Clone URL: https://aur.archlinux.org/emboss.git (read-only)
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: 17
Popularity: 0.080953
First Submitted: 2008-12-28 12:20
Last Updated: 2016-04-25 09:10

Latest Comments

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

antony 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

anadon commented on 2013-10-17 17:17

The 6.5.7 package has moved to the old directory. The new one is located at this link:

ftp://emboss.open-bio.org/pub/EMBOSS/EMBOSS-6.6.0.tar.gz

mschu commented on 2013-09-03 09:26

I don't see why this should be out of date. Download fails, but the EMBOSS webpage still links the same version, so this is an upstream fault and not one of the package.

mschu commented on 2012-09-05 11:54

Updated.

Please do mark the package out-of-date if it is, so I can spot them right away in the package list.

Anonymous comment on 2012-09-05 08:14

There is a new version available:
pkgver=6.5.7
md5sums=('6a2cb3f93d5e9415c74ab0f6b1ede5f0')

But makepkg still fails with this error message:
configure: error: Java OS include directory /usr/lib/jvm/java-7-openjdk/include/linux does not exist
==> ERROR: A failure occurred in build().
Aborting...

mschu commented on 2012-06-29 16:48

Thank you for the message, install seems to have changed its location. Updated.

benwbooth commented on 2012-06-29 15:28

The install tool is located at /usr/bin/install instead of /bin/install. I had to delete the last line of the build() function to get this package to build correctly.

Anonymous comment on 2011-12-20 23:55

I can adopt it :)

Anonymous comment on 2011-10-18 18:02

Adopted (but I do not use this program, so if someone who uses it is interested, I'd orphan).

Anonymous comment on 2011-10-18 17:41

Adopted (but I do not use this program, so if someone who uses it is interested, I'd orphan).

Anonymous comment on 2011-08-01 14:28

So I answer to myself after an email I got from @duca

After downloading EMBOSS-6.4.0.tar.gz I did a

md5sum name_of_emboss_version

and replaced the md5sum in the pkbuild by the one I got from the command, after that pkbuild worked...

anyways, please update the pkbuild here this is the md5sum

54993a22064222b01bd4fc8086f7684d

Anonymous comment on 2011-07-25 21:39

this is out of date, new emboss out is 6.4 and can be found here

ftp://emboss.open-bio.org/pub/EMBOSS/EMBOSS-6.4.0.tar.gz

My doubt is, where do I get the md5sum number?

cheers

Anonymous comment on 2011-01-11 14:06

updated to v.6.3.1

duca commented on 2010-12-16 00:55

guys, since this program is not of use for me anymore, i would like to hand it over. You are free to adopt it.

Anonymous comment on 2010-11-07 21:39

@rent0n: theres is a new version online (since 7/19) and you have to edit the PKGUILD. Here is my edited PKGBUILD for version 3.6.1: http://aur.pastebin.com/bzReXLBB

Anonymous comment on 2010-10-23 17:56

Emboss can't be downloaded:

┌─[enrico@aspire][~]
└─[$] aurget -S emboss
resolving dependencies...
searching AUR...

Targets (1): emboss-6.2.0-2

Proceed with installation? [Y/n]
:: Retrieving source tarball from AUR...
--2010-10-23 15:50:15-- http://aur.archlinux.org/packages/emboss/emboss.tar.gz
Resolving aur.archlinux.org... 208.92.232.29
Connecting to aur.archlinux.org|208.92.232.29|:80... connected.
HTTP request sent, awaiting response... 200 OK
Length: 620 [application/x-tgz]
Saving to: `/home/enrico/.aur/emboss.tar.gz'

100%[===============================================================>] 620 --.-K/s in 0s

2010-10-23 15:50:16 (55.7 MB/s) - `/home/enrico/.aur/emboss.tar.gz' saved [620/620]

:: Extracting source tarball...
:: Building package...
==> Making package: emboss 6.2.0-2 (Sat Oct 23 15:50:16 BST 2010)
==> Checking Runtime Dependencies...
==> Checking Buildtime Dependencies...
==> Retrieving Sources...
-> Downloading EMBOSS-6.2.0.tar.gz...
--2010-10-23 15:50:16-- ftp://emboss.open-bio.org/pub/EMBOSS/EMBOSS-6.2.0.tar.gz
=> `EMBOSS-6.2.0.tar.gz.part'
Resolving emboss.open-bio.org... 208.94.50.58
Connecting to emboss.open-bio.org|208.94.50.58|:21... connected.
Logging in as anonymous ... Logged in!
==> SYST ... done. ==> PWD ... done.
==> TYPE I ... done. ==> CWD (1) /pub/EMBOSS ... done.
==> SIZE EMBOSS-6.2.0.tar.gz ... done.
==> PASV ... done. ==> RETR EMBOSS-6.2.0.tar.gz ...
No such file `EMBOSS-6.2.0.tar.gz'.

==> ERROR: Failure while downloading EMBOSS-6.2.0.tar.gz
Aborting...

Also, please update the package.
Any news about Jemboss?

Thank you!

Anonymous comment on 2010-09-29 11:57

Hi here's an up to date PKGBUILD (with sun jdk) : http://aur.pastebin.com/D9XKwneL

Many thanks for the original PKGBUILD

duca commented on 2010-05-22 21:08

sorry for not answering you before, i will try to come up with one as soon as possible.

Anonymous comment on 2010-05-02 11:46

any chances for a Jemboss PKGBUILD?