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Port details on branch 2022Q3
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 17.0.1.11Version 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
WWW:
https://www.sanger.ac.uk/science/tools/artemis
Description:
Artemis is a DNA sequence viewer and annotation tool that allows visualisation of sequence features and the results of analyses within the context of the sequence, and its six-frame translation. Artemis is written in Java, reads EMBL or GENBANK format sequences and feature tables, and can work on sequences of any size. ACT (Artemis Comparison Tool) is a DNA sequence comparison viewer based on Artemis. It can open two or more sequences (and their annotations/features) together with their comparisons (usually the result of running blastn or tblastx searches).
Homepage    cgit ¦ Codeberg ¦ GitHub ¦ GitLab ¦ SVNWeb

Manual pages:
FreshPorts has no man page information for this port.
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:
TIMESTAMP = 1528734532 SHA256 (sanger-pathogens-artemis-v17.0.1-11-g3e43d27e_GH0.tar.gz) = a490d4b76bfdd8a531d22f2e0495e8c2c6e8efad18e6a9a0043ac425c7ab16dc SIZE (sanger-pathogens-artemis-v17.0.1-11-g3e43d27e_GH0.tar.gz) = 77195529
Packages (timestamps in pop-ups are UTC):
artemis
ABIaarch64amd64armv6armv7i386powerpcpowerpc64powerpc64le
FreeBSD:13:latest17.0.1.1117.0.1.11-17.0.1.1117.0.1.11---
FreeBSD:13:quarterly17.0.1.1117.0.1.1117.0.1.1117.0.1.1117.0.1.11-17.0.1.1117.0.1.11
FreeBSD:14:latest17.0.1.1117.0.1.1117.0.1.11-17.0.1.11--17.0.1.11
FreeBSD:14:quarterly17.0.1.1117.0.1.11--17.0.1.11-17.0.1.1117.0.1.11
FreeBSD:15:latest17.0.1.1117.0.1.11n/a-n/a-17.0.1.1117.0.1.11
FreeBSD:15:quarterly--n/a-n/a---
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:
No options to configure
Options name:
biology_artemis
USES:
gmake shebangfix
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.

There are no commits on branch 2022Q3 for this port
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