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NOTE: the WWW: line in pkg-descr was relocated to a WWW= line in Makefile. Each port in FreshPorts has a homepage link. Look for it right after the Description: on each port's home page.

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The emphasis is on know, or recommended by someone I know. This is the original FreshPorts server, way past useful: RAID, 8GB RAM, etc. The drives need to be wiped and everything recycled.
Port details
artemis DNA sequence viewer and annotation tool
17.0.1.11 biology on this many watch lists=0 search for ports that depend on this port Find issues related to this port Report an issue related to this port View this port on Repology. pkg-fallout Version of this port present on the latest quarterly branch.
Maintainer: yuri@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2001-12-22 11:39:40
Last Update: 2022-09-07 21:58:51
Commit Hash: fb16dfe
Also Listed In: java
License: GPLv3
Description:
HomepagecgitgithubgitlabSVNWeb
pkg-plist: as obtained via: make generate-plist
Expand this list (130 items)
Collapse this list.
  1. /usr/local/share/licenses/artemis-17.0.1.11/catalog.mk
  2. /usr/local/share/licenses/artemis-17.0.1.11/LICENSE
  3. /usr/local/share/licenses/artemis-17.0.1.11/GPLv3
  4. artemis-17.0.1.11/act
  5. artemis-17.0.1.11/art
  6. artemis-17.0.1.11/artemis_sqlmap/Analysis.xml
  7. artemis-17.0.1.11/artemis_sqlmap/AnalysisFeature.xml
  8. artemis-17.0.1.11/artemis_sqlmap/Cv.xml
  9. artemis-17.0.1.11/artemis_sqlmap/CvTerm.xml
  10. artemis-17.0.1.11/artemis_sqlmap/Db.xml
  11. artemis-17.0.1.11/artemis_sqlmap/DbXRef.xml
  12. artemis-17.0.1.11/artemis_sqlmap/Feature.xml
  13. artemis-17.0.1.11/artemis_sqlmap/FeatureCvTerm.xml
  14. artemis-17.0.1.11/artemis_sqlmap/FeatureCvTermDbXRef.xml
  15. artemis-17.0.1.11/artemis_sqlmap/FeatureCvTermProp.xml
  16. artemis-17.0.1.11/artemis_sqlmap/FeatureCvTermPub.xml
  17. artemis-17.0.1.11/artemis_sqlmap/FeatureDbXRef.xml
  18. artemis-17.0.1.11/artemis_sqlmap/FeatureLoc.xml
  19. artemis-17.0.1.11/artemis_sqlmap/FeatureProp.xml
  20. artemis-17.0.1.11/artemis_sqlmap/FeaturePub.xml
  21. artemis-17.0.1.11/artemis_sqlmap/FeatureRelationship.xml
  22. artemis-17.0.1.11/artemis_sqlmap/FeatureSynonym.xml
  23. artemis-17.0.1.11/artemis_sqlmap/Graph.xml
  24. artemis-17.0.1.11/artemis_sqlmap/Organism.xml
  25. artemis-17.0.1.11/artemis_sqlmap/OrganismProp.xml
  26. artemis-17.0.1.11/artemis_sqlmap/Pub.xml
  27. artemis-17.0.1.11/artemis_sqlmap/PubDbXRef.xml
  28. artemis-17.0.1.11/artemis_sqlmap/Synonym.xml
  29. artemis-17.0.1.11/artemis_sqlmap/chado_iBatis_config.properties
  30. artemis-17.0.1.11/artemis_sqlmap/chado_iBatis_config.xml
  31. artemis-17.0.1.11/bamview
  32. artemis-17.0.1.11/dnaplotter
  33. artemis-17.0.1.11/etc/af063097.embl
  34. artemis-17.0.1.11/etc/af063097.fasta
  35. artemis-17.0.1.11/etc/af063097_v_b132222.crunch
  36. artemis-17.0.1.11/etc/b132222.embl
  37. artemis-17.0.1.11/etc/b132222.fasta
  38. artemis-17.0.1.11/etc/c1215.blastn.crunch
  39. artemis-17.0.1.11/etc/c1215.blastn.tab
  40. artemis-17.0.1.11/etc/c1215.embl
  41. artemis-17.0.1.11/etc/c1215.genbank
  42. artemis-17.0.1.11/etc/c1215.seq
  43. artemis-17.0.1.11/etc/chado_extra.sql
  44. artemis-17.0.1.11/etc/feature_keys
  45. artemis-17.0.1.11/etc/feature_keys_gff
  46. artemis-17.0.1.11/etc/go_associations.pl
  47. artemis-17.0.1.11/etc/key_mapping
  48. artemis-17.0.1.11/etc/log4j.properties
  49. artemis-17.0.1.11/etc/log4j.properties.txt
  50. artemis-17.0.1.11/etc/options
  51. artemis-17.0.1.11/etc/pombe.usage
  52. artemis-17.0.1.11/etc/project.properties
  53. artemis-17.0.1.11/etc/qualifier_mapping
  54. artemis-17.0.1.11/etc/qualifier_types
  55. artemis-17.0.1.11/etc/qualifier_types_gff
  56. artemis-17.0.1.11/etc/readmeDNADraw.html
  57. artemis-17.0.1.11/etc/results_to_netscape
  58. artemis-17.0.1.11/etc/run_blastn
  59. artemis-17.0.1.11/etc/run_blastn.sanger
  60. artemis-17.0.1.11/etc/run_blastp
  61. artemis-17.0.1.11/etc/run_blastp.sanger
  62. artemis-17.0.1.11/etc/run_blastp.sanger.linux
  63. artemis-17.0.1.11/etc/run_blastx
  64. artemis-17.0.1.11/etc/run_blastx.sanger
  65. artemis-17.0.1.11/etc/run_clustalx
  66. artemis-17.0.1.11/etc/run_clustalx.sanger
  67. artemis-17.0.1.11/etc/run_fasta
  68. artemis-17.0.1.11/etc/run_fasta.sanger
  69. artemis-17.0.1.11/etc/run_fasta.sanger.linux
  70. artemis-17.0.1.11/etc/run_fastx
  71. artemis-17.0.1.11/etc/run_fastx.sanger
  72. artemis-17.0.1.11/etc/run_hth
  73. artemis-17.0.1.11/etc/run_jalview
  74. artemis-17.0.1.11/etc/run_netblastp
  75. artemis-17.0.1.11/etc/run_pepstats
  76. artemis-17.0.1.11/etc/run_sigcleave
  77. artemis-17.0.1.11/etc/run_smart
  78. artemis-17.0.1.11/etc/run_tblastn
  79. artemis-17.0.1.11/etc/run_tblastx
  80. artemis-17.0.1.11/etc/run_tblastx.sanger
  81. artemis-17.0.1.11/etc/versions
  82. artemis-17.0.1.11/etc/writedb_entry
  83. artemis-17.0.1.11/images/Wellcome_Sanger_Institute_Logo_Landscape_Digital_RGB_Full_Colour.jpg
  84. artemis-17.0.1.11/images/act.gif
  85. artemis-17.0.1.11/images/helix.gif
  86. artemis-17.0.1.11/images/icon.gif
  87. artemis-17.0.1.11/images/sanger-centre.gif
  88. artemis-17.0.1.11/jars/act.jar
  89. artemis-17.0.1.11/jars/artemis.jar
  90. artemis-17.0.1.11/jars/bamview.jar
  91. artemis-17.0.1.11/jars/dnaplotter.jar
  92. artemis-17.0.1.11/lib/LICENSE.Apache
  93. artemis-17.0.1.11/lib/LICENSE.JDBC
  94. artemis-17.0.1.11/lib/LICENSE.Picard
  95. artemis-17.0.1.11/lib/README
  96. artemis-17.0.1.11/lib/batik/batik-awt-util.jar
  97. artemis-17.0.1.11/lib/batik/batik-codec.jar
  98. artemis-17.0.1.11/lib/batik/batik-dom.jar
  99. artemis-17.0.1.11/lib/batik/batik-ext.jar
  100. artemis-17.0.1.11/lib/batik/batik-svggen.jar
  101. artemis-17.0.1.11/lib/batik/batik-util.jar
  102. artemis-17.0.1.11/lib/batik/batik-xml.jar
  103. artemis-17.0.1.11/lib/batik/version
  104. artemis-17.0.1.11/lib/biojava.jar
  105. artemis-17.0.1.11/lib/commons-lang-2.6.jar
  106. artemis-17.0.1.11/lib/commons-net-3.6.jar
  107. artemis-17.0.1.11/lib/ibatis/README
  108. artemis-17.0.1.11/lib/ibatis/cglib-nodep-2.2.jar
  109. artemis-17.0.1.11/lib/ibatis/ibatis-2.3.4.726.jar
  110. artemis-17.0.1.11/lib/ibatis/license.txt
  111. artemis-17.0.1.11/lib/ibatis/log4j-1.2.14.jar
  112. artemis-17.0.1.11/lib/j2ssh/COMMONS.LICENSE
  113. artemis-17.0.1.11/lib/j2ssh/J2SSH.LICENSE
  114. artemis-17.0.1.11/lib/j2ssh/README
  115. artemis-17.0.1.11/lib/j2ssh/commons-logging.jar
  116. artemis-17.0.1.11/lib/j2ssh/j2ssh-artemis-plugin.jar
  117. artemis-17.0.1.11/lib/j2ssh/j2ssh-core.jar
  118. artemis-17.0.1.11/lib/j2ssh/j2ssh.properties
  119. artemis-17.0.1.11/lib/jakarta-regexp-1.2.jar
  120. artemis-17.0.1.11/lib/jemAlign.jar
  121. artemis-17.0.1.11/lib/picard/VERSION.txt
  122. artemis-17.0.1.11/lib/picard/picard.jar
  123. artemis-17.0.1.11/lib/postgresql-8.4-701.jdbc3.jar
  124. bin/act
  125. bin/art
  126. bin/bamview
  127. bin/dnaplotter
  128. @owner
  129. @group
  130. @mode
Collapse this list.
Dependency lines:
  • artemis>0:biology/artemis
To install the port:
cd /usr/ports/biology/artemis/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/artemis
  • pkg install artemis
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.
PKGNAME: artemis
Flavors: there is no flavor information for this port.
distinfo:
Packages (timestamps in pop-ups are UTC):
artemis
ABIlatestquarterly
FreeBSD:11:aarch6417.0.1.1117.0.1.11
FreeBSD:11:amd6417.0.1.1117.0.1.11
FreeBSD:11:armv69_117.0.1.11
FreeBSD:11:i38617.0.1.1117.0.1.11
FreeBSD:11:mips--
FreeBSD:11:mips64--
FreeBSD:12:aarch6417.0.1.1117.0.1.11
FreeBSD:12:amd6417.0.1.1117.0.1.11
FreeBSD:12:armv617.0.1.11-
FreeBSD:12:armv717.0.1.11-
FreeBSD:12:i38617.0.1.1117.0.1.11
FreeBSD:12:mips--
FreeBSD:12:mips64--
FreeBSD:12:powerpc64-17.0.1.11
FreeBSD:13:aarch6417.0.1.1117.0.1.11
FreeBSD:13:amd6417.0.1.1117.0.1.11
FreeBSD:13:armv6-17.0.1.11
FreeBSD:13:armv717.0.1.1117.0.1.11
FreeBSD:13:i38617.0.1.1117.0.1.11
FreeBSD:13:mips--
FreeBSD:13:mips64--
FreeBSD:13:powerpc64-17.0.1.11
FreeBSD:13:riscv64--
FreeBSD:14:aarch64--
FreeBSD:14:amd6417.0.1.11-
FreeBSD:14:armv617.0.1.11-
FreeBSD:14:armv717.0.1.11-
FreeBSD:14:i38617.0.1.11-
FreeBSD:14:mips--
FreeBSD:14:mips64--
FreeBSD:14:powerpc6417.0.1.11-
FreeBSD:14:riscv64--
 

Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Build dependencies:
  1. java : java/openjdk8
  2. gmake>=4.3 : devel/gmake
Runtime dependencies:
  1. bash : shells/bash
  2. java : java/openjdk8
There are no ports dependent upon this port

Configuration Options:
Options name:

USES:

FreshPorts was unable to extract/find any pkg message
Master Sites:
Expand this list (1 items)
Collapse this list.
  1. https://codeload.github.com/sanger-pathogens/artemis/tar.gz/v17.0.1-11-g3e43d27e?dummy=/
Collapse this list.

Number of commits found: 29

Commit History - (may be incomplete: see SVNWeb link above for full details)
CommitCreditsLog message
07 Sep 2022 21:58:51
commit hash:fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash:fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash:fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4 files touched by this commit
Stefan Eßer (se) search for other commits by this committer
Remove WWW entries moved into port Makefiles

Commit b7f05445c00f has added WWW entries to port Makefiles based on
WWW: lines in pkg-descr files.

This commit removes the WWW: lines of moved-over URLs from these
pkg-descr files.

Approved by:		portmgr (tcberner)
17.0.1.11
07 Sep 2022 21:10:59
commit hash:b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash:b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash:b7f05445c00f2625aa19b4154ebcbce5ed2daa52 files touched by this commit
Stefan Eßer (se) search for other commits by this committer
Add WWW entries to port Makefiles

It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.

Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.

There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.
(Only the first 15 lines of the commit message are shown above View all of this commit message)
17.0.1.11
20 Jul 2022 14:20:57
commit hash:37526bbd4e50616d87f70e1c788ae4895d88d671commit hash:37526bbd4e50616d87f70e1c788ae4895d88d671commit hash:37526bbd4e50616d87f70e1c788ae4895d88d671 files touched by this commit
Tobias C. Berner (tcberner) search for other commits by this committer
biology: remove 'Created by' lines

A big Thank You to the original contributors of these ports:

  *  Aaron Dalton <aaron@FreeBSD.org>
  *  Akinori MUSHA aka knu <knu@idaemons.org>
  *  Andrey Zakhvatov
  *  Bob Zimmermann <rpz@cse.wustl.edu>
  *  Camson Huynh <chuynh@biolateral.com.au>
  *  Dan Siercks <dsiercks@uwm.edu>
  *  Fernan Aguero <fernan@iib.unsam.edu.ar>
  *  Hannes Hauswedell <h2+fbsdports@fsfe.org>
  *  J. Bacon <jwb@FreeBSD.org>
  *  Jason Bacon <jwb@FreeBSD.org>
  *  Jeremy <karlj000@unbc.ca>
(Only the first 15 lines of the commit message are shown above View all of this commit message)
17.0.1.11
06 Apr 2021 14:31:07
commit hash:305f148f482daf30dcf728039d03d019f88344ebcommit hash:305f148f482daf30dcf728039d03d019f88344ebcommit hash:305f148f482daf30dcf728039d03d019f88344eb files touched by this commit
Mathieu Arnold (mat) search for other commits by this committer
Remove # $FreeBSD$ from Makefiles.
17.0.1.11
26 Nov 2019 21:46:13
Revision:518482Original commit files touched by this commit
jkim search for other commits by this committer
Clean up after java/openjdk6 and java/openjdk6-jre removal

java/openjdk6 support was removed from Mk/bsd.java.mk (r512662) and
java/openjdk6 and java/openjdk6-jre were removed from the ports tree
(r512663).  Now this patch completely removes remaining stuff from the
ports tree.

PR:			241953 (exp-run)
Reviewed by:		glewis
Approved by:		portmgr (antoine)
Differential Revision:	https://reviews.freebsd.org/D22342
17.0.1.11
11 Jun 2018 17:45:57
Revision:472197Original commit files touched by this commit
yuri search for other commits by this committer
biology/artemis: Update 9 -> 17.0.1-11

Port changes:
* Take maintainership
* Change to github
* Change to DISTVERSION
* Add LICENSE
* Depends on bash
* Add USES=gmake
* Remove NO_BUILD: needs to build jars from java files
* Update the post-extract target
* Change do-install to do minimal installation
* Update WWW
9_2
13 Oct 2017 11:14:32
Revision:451981Original commit files touched by this commit
bapt search for other commits by this committer
Remove dead master sites
9_2
21 Apr 2017 16:28:25
Revision:439093Original commit files touched by this commit
amdmi3 search for other commits by this committer
- Fix shebangs
- Add NO_ARCH
- Switch to relative links
9_1
21 Oct 2016 12:51:41
Revision:424411Original commit files touched by this commit Sanity Test Failure
mat search for other commits by this committer
${RM} already has -f.

PR:		213570
Submitted by:	mat
Exp-run by:	antoine
Sponsored by:	Absolight
9_1
11 Mar 2015 14:41:54
Revision:380989Original commit files touched by this commit
amdmi3 search for other commits by this committer
- Add empty directory to plist
9_1
20 Oct 2014 07:10:48
Revision:371237Original commit files touched by this commit
bapt search for other commits by this committer
Cleanup plist
9_1
20 Jan 2014 23:06:48
Revision:340486Original commit files touched by this commit
bapt search for other commits by this committer
Support stage
9_1
20 Sep 2013 15:55:44
Revision:327709Original commit files touched by this commit
bapt search for other commits by this committer
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology)
9_1
10 Dec 2012 11:25:28
Revision:308600Original commit files touched by this commit
bapt search for other commits by this committer
Decommissioning java 1.5 (EOLed since October 2009):
suppress any reference to USE_JAVA=	1.5+ (part1)
9_1
01 Oct 2012 14:45:17
Revision:305130Original commit files touched by this commit
tabthorpe search for other commits by this committer
- Reassign to the heap at maintainer's request
9_1
21 Jul 2011 05:03:02
Original commit files touched by this commit
linimon search for other commits by this committer
Now that the Java 1.3 and Java 1.4 ports are deprecated and will expire soon,
remove support for them from bsd.java.mk.  As Jikes is not available in Java 1.5
or higher, remove it from bsd.java.mk too (suggested by hq@) and from the ports
which used it (only occurences were USE_JIKES=no).  Support for the Blackdown VM
is also removed, as it is not available in Java 1.5 and higher.

Also remove the mapping from Java 1.1-1.4 to Java 1.5+ in bsd.java.mk to detect
old, broken ports; therefore bump the minimal value of JAVA_VERSION to 1.5.
While here, replace static values of JAVA_VERSION in files/*.in by
%%JAVA_VERSION%% .

PR:             ports/158969
Submitted by:   rene
Tested on:      pointyhat-west -exp
9_1
19 Mar 2011 12:38:54
Original commit files touched by this commit
miwi search for other commits by this committer
- Get Rid MD5 support
9_1
06 Jun 2008 13:08:29
Original commit files touched by this commit
edwin search for other commits by this committer
Bump portrevision due to upgrade of devel/gettext.

The affected ports are the ones with gettext as a run-dependency
according to ports/INDEX-7 (5007 of them) and the ones with USE_GETTEXT
in Makefile (29 of them).

PR:             ports/124340
Submitted by:   edwin@
Approved by:    portmgr (pav)
9
08 Jul 2007 11:47:58
Original commit files touched by this commit
rafan search for other commits by this committer
- Update to version 9
- Don't install CVS directories which are going to be removed
  in next release

PR:             ports/113831
Submitted by:   Thomas Abthorpe <thomas at goodking.ca>
Approved by:    maintainer timeout (20 days)
7_2
26 May 2007 21:03:05
Original commit files touched by this commit
kris search for other commits by this committer
BROKEN: Unfetchable
7_2
19 May 2007 20:32:57
Original commit files touched by this commit
flz search for other commits by this committer
- Welcome X.org 7.2 \o/.
- Set X11BASE to ${LOCALBASE} for recent ${OSVERSION}.
- Bump PORTREVISION for ports intalling files in ${X11BASE}.
7_1
05 Dec 2005 16:57:26
Original commit files touched by this commit
tdb search for other commits by this committer
- Fix fetch problems

PR:             89971
Submitted by:   Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer)
Approved by:    clement (mentor)
7
20 Sep 2005 14:59:28
Original commit files touched by this commit
hq search for other commits by this committer
Update to version 7

PR:             86196
Submitted by:   Tony Maher <anthony.maher@uts.edu.au>
Approved by:    maintainer
6
20 Mar 2005 14:43:55
Original commit files touched by this commit
hq search for other commits by this committer
- Add 'java' category
- Remove incorrect (and unneeded) JAVA_RUN statement

PR:             78761
Submitted by:   me
6
12 Mar 2005 08:01:19
Original commit files touched by this commit
sem search for other commits by this committer
- Update to version 6
- Pass maintainership to submitter

PR:             ports/76219
Submitted by:   Fernan Aguero <fernan@iib.unsam.edu.ar>
Approved by:    maintainer timeout (2 monthes)
4.0_1
31 Mar 2004 03:12:58
Original commit files touched by this commit
trevor search for other commits by this committer
SIZEify (maintainer timeout)
4.0_1
04 Feb 2004 05:21:48
Original commit files touched by this commit
marcus search for other commits by this committer
Bump PORTREVISION on all ports that depend on gettext to aid with upgrading.

(Part 2)
4.0
21 Feb 2003 11:01:38
Original commit files touched by this commit
knu search for other commits by this committer
De-pkg-comment.
22 Dec 2001 14:39:40
commit hash:fp1.22386@dev.null.freshports.orgcommit hash:fp1.22386@dev.null.freshports.orgcommit hash:fp1.22386@dev.null.freshports.org files touched by this commit
kevlo search for other commits by this committer
Initial import of artemis 4.0    

Number of commits found: 29