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Port details
ugene Free, open-source, cross-platform bioinformatics toolkit
1.22.0_2 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
Maintainer: h2+fbsdports@fsfe.org search for ports maintained by this maintainer
Port Added: 23 Feb 2013 04:51:12
Also Listed In: science
License: GPLv2
Unipro UGENE is multiplatform, open-source software with the main goal of
assisting molecular biologists without much expertise in bioinformatics to
manage, analyze, and visualize their data.  UGENE integrates widely used
bioinformatics tools within one common user interface.

UGENE toolkit supports multiple biological data formats and allows the
retrieval of data from remote data sources.  It provides visualization
modules for biological objects such as annotated genome sequences, Next
Generation Sequencing (NGS) assembly data, multiple sequence alignments,
phylogenetic trees, and 3D structures.

WWW: http://ugene.unipro.ru/
SVNWeb : Homepage : PortsMon
    Pseudo-pkg-plist information, but much better, from make generate-plist
    Expand this list (1451 items)
  1. @desktop-file-utils
  2. /usr/local/share/licenses/ugene-1.22.0_2/catalog.mk
  3. /usr/local/share/licenses/ugene-1.22.0_2/LICENSE
  4. /usr/local/share/licenses/ugene-1.22.0_2/GPLv2
  5. bin/ugene
  6. lib/ugene/libU2Algorithm.so
  7. lib/ugene/libU2Algorithm.so.1
  8. lib/ugene/libU2Algorithm.so.1.0
  9. lib/ugene/libU2Algorithm.so.1.0.0
  10. lib/ugene/libU2Core.so
  11. lib/ugene/libU2Core.so.1
  12. lib/ugene/libU2Core.so.1.0
  13. lib/ugene/libU2Core.so.1.0.0
  14. lib/ugene/libU2Designer.so
  15. lib/ugene/libU2Designer.so.1
  16. lib/ugene/libU2Designer.so.1.0
  17. lib/ugene/libU2Designer.so.1.0.0
  18. lib/ugene/libU2Formats.so
  19. lib/ugene/libU2Formats.so.1
  20. lib/ugene/libU2Formats.so.1.0
  21. lib/ugene/libU2Formats.so.1.0.0
  22. lib/ugene/libU2Gui.so
  23. lib/ugene/libU2Gui.so.1
  24. lib/ugene/libU2Gui.so.1.0
  25. lib/ugene/libU2Gui.so.1.0.0
  26. lib/ugene/libU2Lang.so
  27. lib/ugene/libU2Lang.so.1
  28. lib/ugene/libU2Lang.so.1.0
  29. lib/ugene/libU2Lang.so.1.0.0
  30. lib/ugene/libU2Private.so
  31. lib/ugene/libU2Private.so.1
  32. lib/ugene/libU2Private.so.1.0
  33. lib/ugene/libU2Private.so.1.0.0
  34. lib/ugene/libU2Remote.so
  35. lib/ugene/libU2Remote.so.1
  36. lib/ugene/libU2Remote.so.1.0
  37. lib/ugene/libU2Remote.so.1.0.0
  38. lib/ugene/libU2Script.so
  39. lib/ugene/libU2Script.so.1
  40. lib/ugene/libU2Script.so.1.0
  41. lib/ugene/libU2Script.so.1.0.0
  42. lib/ugene/libU2Test.so
  43. lib/ugene/libU2Test.so.1
  44. lib/ugene/libU2Test.so.1.0
  45. lib/ugene/libU2Test.so.1.0.0
  46. lib/ugene/libU2View.so
  47. lib/ugene/libU2View.so.1
  48. lib/ugene/libU2View.so.1.0
  49. lib/ugene/libU2View.so.1.0.0
  50. lib/ugene/libgtest.so
  51. lib/ugene/libgtest.so.1
  52. lib/ugene/libgtest.so.1.0
  53. lib/ugene/libgtest.so.1.0.0
  54. lib/ugene/libugenedb.so
  55. lib/ugene/libugenedb.so.1
  56. lib/ugene/libugenedb.so.1.0
  57. lib/ugene/libugenedb.so.1.0.0
  58. lib/ugene/plugins/CoreTests.license
  59. lib/ugene/plugins/CoreTests.plugin
  60. lib/ugene/plugins/annotator.license
  61. lib/ugene/plugins/annotator.plugin
  62. lib/ugene/plugins/api_tests.license
  63. lib/ugene/plugins/api_tests.plugin
  64. lib/ugene/plugins/ball.license
  65. lib/ugene/plugins/ball.plugin
  66. lib/ugene/plugins/biostruct3d_view.license
  67. lib/ugene/plugins/biostruct3d_view.plugin
  68. lib/ugene/plugins/browser_support.license
  69. lib/ugene/plugins/browser_support.plugin
  70. lib/ugene/plugins/chroma_view.license
  71. lib/ugene/plugins/chroma_view.plugin
  72. lib/ugene/plugins/circular_view.license
  73. lib/ugene/plugins/circular_view.plugin
  74. lib/ugene/plugins/dbi_bam.license
  75. lib/ugene/plugins/dbi_bam.plugin
  76. lib/ugene/plugins/dna_export.license
  77. lib/ugene/plugins/dna_export.plugin
  78. lib/ugene/plugins/dna_flexibility.license
  79. lib/ugene/plugins/dna_flexibility.plugin
  80. lib/ugene/plugins/dna_graphpack.license
  81. lib/ugene/plugins/dna_graphpack.plugin
  82. lib/ugene/plugins/dna_stat.license
  83. lib/ugene/plugins/dna_stat.plugin
  84. lib/ugene/plugins/dotplot.license
  85. lib/ugene/plugins/dotplot.plugin
  86. lib/ugene/plugins/enzymes.license
  87. lib/ugene/plugins/enzymes.plugin
  88. lib/ugene/plugins/external_tool_support.license
  89. lib/ugene/plugins/external_tool_support.plugin
  90. lib/ugene/plugins/genome_aligner.license
  91. lib/ugene/plugins/genome_aligner.plugin
  92. lib/ugene/plugins/gor4.license
  93. lib/ugene/plugins/gor4.plugin
  94. lib/ugene/plugins/hmm2.license
  95. lib/ugene/plugins/hmm2.plugin
  96. lib/ugene/plugins/hmm3.license
  97. lib/ugene/plugins/hmm3.plugin
  98. lib/ugene/plugins/kalign.license
  99. lib/ugene/plugins/kalign.plugin
  100. lib/ugene/plugins/libCoreTests.so
  101. lib/ugene/plugins/libCoreTests.so.1
  102. lib/ugene/plugins/libCoreTests.so.1.0
  103. lib/ugene/plugins/libCoreTests.so.1.0.0
  104. lib/ugene/plugins/libannotator.so
  105. lib/ugene/plugins/libannotator.so.1
  106. lib/ugene/plugins/libannotator.so.1.0
  107. lib/ugene/plugins/libannotator.so.1.0.0
  108. lib/ugene/plugins/libapi_tests.so
  109. lib/ugene/plugins/libapi_tests.so.1
  110. lib/ugene/plugins/libapi_tests.so.1.0
  111. lib/ugene/plugins/libapi_tests.so.1.0.0
  112. lib/ugene/plugins/libball.so
  113. lib/ugene/plugins/libball.so.1
  114. lib/ugene/plugins/libball.so.1.0
  115. lib/ugene/plugins/libball.so.1.0.0
  116. lib/ugene/plugins/libbiostruct3d_view.so
  117. lib/ugene/plugins/libbiostruct3d_view.so.1
  118. lib/ugene/plugins/libbiostruct3d_view.so.1.0
  119. lib/ugene/plugins/libbiostruct3d_view.so.1.0.0
  120. lib/ugene/plugins/libbrowser_support.so
  121. lib/ugene/plugins/libbrowser_support.so.1
  122. lib/ugene/plugins/libbrowser_support.so.1.0
  123. lib/ugene/plugins/libbrowser_support.so.1.0.0
  124. lib/ugene/plugins/libchroma_view.so
  125. lib/ugene/plugins/libchroma_view.so.1
  126. lib/ugene/plugins/libchroma_view.so.1.0
  127. lib/ugene/plugins/libchroma_view.so.1.0.0
  128. lib/ugene/plugins/libcircular_view.so
  129. lib/ugene/plugins/libcircular_view.so.1
  130. lib/ugene/plugins/libcircular_view.so.1.0
  131. lib/ugene/plugins/libcircular_view.so.1.0.0
  132. lib/ugene/plugins/libdbi_bam.so
  133. lib/ugene/plugins/libdbi_bam.so.1
  134. lib/ugene/plugins/libdbi_bam.so.1.0
  135. lib/ugene/plugins/libdbi_bam.so.1.0.0
  136. lib/ugene/plugins/libdna_export.so
  137. lib/ugene/plugins/libdna_export.so.1
  138. lib/ugene/plugins/libdna_export.so.1.0
  139. lib/ugene/plugins/libdna_export.so.1.0.0
  140. lib/ugene/plugins/libdna_flexibility.so
  141. lib/ugene/plugins/libdna_flexibility.so.1
  142. lib/ugene/plugins/libdna_flexibility.so.1.0
  143. lib/ugene/plugins/libdna_flexibility.so.1.0.0
  144. lib/ugene/plugins/libdna_graphpack.so
  145. lib/ugene/plugins/libdna_graphpack.so.1
  146. lib/ugene/plugins/libdna_graphpack.so.1.0
  147. lib/ugene/plugins/libdna_graphpack.so.1.0.0
  148. lib/ugene/plugins/libdna_stat.so
  149. lib/ugene/plugins/libdna_stat.so.1
  150. lib/ugene/plugins/libdna_stat.so.1.0
  151. lib/ugene/plugins/libdna_stat.so.1.0.0
  152. lib/ugene/plugins/libdotplot.so
  153. lib/ugene/plugins/libdotplot.so.1
  154. lib/ugene/plugins/libdotplot.so.1.0
  155. lib/ugene/plugins/libdotplot.so.1.0.0
  156. lib/ugene/plugins/libenzymes.so
  157. lib/ugene/plugins/libenzymes.so.1
  158. lib/ugene/plugins/libenzymes.so.1.0
  159. lib/ugene/plugins/libenzymes.so.1.0.0
  160. lib/ugene/plugins/libexternal_tool_support.so
  161. lib/ugene/plugins/libexternal_tool_support.so.1
  162. lib/ugene/plugins/libexternal_tool_support.so.1.0
  163. lib/ugene/plugins/libexternal_tool_support.so.1.0.0
  164. lib/ugene/plugins/libgenome_aligner.so
  165. lib/ugene/plugins/libgenome_aligner.so.1
  166. lib/ugene/plugins/libgenome_aligner.so.1.0
  167. lib/ugene/plugins/libgenome_aligner.so.1.0.0
  168. lib/ugene/plugins/libgor4.so
  169. lib/ugene/plugins/libgor4.so.1
  170. lib/ugene/plugins/libgor4.so.1.0
  171. lib/ugene/plugins/libgor4.so.1.0.0
  172. lib/ugene/plugins/libhmm2.so
  173. lib/ugene/plugins/libhmm2.so.1
  174. lib/ugene/plugins/libhmm2.so.1.0
  175. lib/ugene/plugins/libhmm2.so.1.0.0
  176. lib/ugene/plugins/libhmm3.so
  177. lib/ugene/plugins/libhmm3.so.1
  178. lib/ugene/plugins/libhmm3.so.1.0
  179. lib/ugene/plugins/libhmm3.so.1.0.0
  180. lib/ugene/plugins/libkalign.so
  181. lib/ugene/plugins/libkalign.so.1
  182. lib/ugene/plugins/libkalign.so.1.0
  183. lib/ugene/plugins/libkalign.so.1.0.0
  184. lib/ugene/plugins/liblinkdata_support.so
  185. lib/ugene/plugins/liblinkdata_support.so.1
  186. lib/ugene/plugins/liblinkdata_support.so.1.0
  187. lib/ugene/plugins/liblinkdata_support.so.1.0.0
  188. lib/ugene/plugins/libopencl_support.so
  189. lib/ugene/plugins/libopencl_support.so.1
  190. lib/ugene/plugins/libopencl_support.so.1.0
  191. lib/ugene/plugins/libopencl_support.so.1.0.0
  192. lib/ugene/plugins/liborf_marker.so
  193. lib/ugene/plugins/liborf_marker.so.1
  194. lib/ugene/plugins/liborf_marker.so.1.0
  195. lib/ugene/plugins/liborf_marker.so.1.0.0
  196. lib/ugene/plugins/libpcr.so
  197. lib/ugene/plugins/libpcr.so.1
  198. lib/ugene/plugins/libpcr.so.1.0
  199. lib/ugene/plugins/libpcr.so.1.0.0
  200. lib/ugene/plugins/libperf_monitor.so
  201. lib/ugene/plugins/libperf_monitor.so.1
  202. lib/ugene/plugins/libperf_monitor.so.1.0
  203. lib/ugene/plugins/libperf_monitor.so.1.0.0
  204. lib/ugene/plugins/libphylip.so
  205. lib/ugene/plugins/libphylip.so.1
  206. lib/ugene/plugins/libphylip.so.1.0
  207. lib/ugene/plugins/libphylip.so.1.0.0
  208. lib/ugene/plugins/libprimer3.so
  209. lib/ugene/plugins/libprimer3.so.1
  210. lib/ugene/plugins/libprimer3.so.1.0
  211. lib/ugene/plugins/libprimer3.so.1.0.0
  212. lib/ugene/plugins/libpsipred.so
  213. lib/ugene/plugins/libpsipred.so.1
  214. lib/ugene/plugins/libpsipred.so.1.0
  215. lib/ugene/plugins/libpsipred.so.1.0.0
  216. lib/ugene/plugins/libptools.so
  217. lib/ugene/plugins/libptools.so.1
  218. lib/ugene/plugins/libptools.so.1.0
  219. lib/ugene/plugins/libptools.so.1.0.0
  220. lib/ugene/plugins/libquery_designer.so
  221. lib/ugene/plugins/libquery_designer.so.1
  222. lib/ugene/plugins/libquery_designer.so.1.0
  223. lib/ugene/plugins/libquery_designer.so.1.0.0
  224. lib/ugene/plugins/libremote_blast.so
  225. lib/ugene/plugins/libremote_blast.so.1
  226. lib/ugene/plugins/libremote_blast.so.1.0
  227. lib/ugene/plugins/libremote_blast.so.1.0.0
  228. lib/ugene/plugins/libremote_service.so
  229. lib/ugene/plugins/libremote_service.so.1
  230. lib/ugene/plugins/libremote_service.so.1.0
  231. lib/ugene/plugins/libremote_service.so.1.0.0
  232. lib/ugene/plugins/librepeat_finder.so
  233. lib/ugene/plugins/librepeat_finder.so.1
  234. lib/ugene/plugins/librepeat_finder.so.1.0
  235. lib/ugene/plugins/librepeat_finder.so.1.0.0
  236. lib/ugene/plugins/libsitecon.so
  237. lib/ugene/plugins/libsitecon.so.1
  238. lib/ugene/plugins/libsitecon.so.1.0
  239. lib/ugene/plugins/libsitecon.so.1.0.0
  240. lib/ugene/plugins/libsmith_waterman.so
  241. lib/ugene/plugins/libsmith_waterman.so.1
  242. lib/ugene/plugins/libsmith_waterman.so.1.0
  243. lib/ugene/plugins/libsmith_waterman.so.1.0.0
  244. lib/ugene/plugins/libtest_runner.so
  245. lib/ugene/plugins/libtest_runner.so.1
  246. lib/ugene/plugins/libtest_runner.so.1.0
  247. lib/ugene/plugins/libtest_runner.so.1.0.0
  248. @comment lib/ugene/plugins/libumuscle.so
  249. @comment lib/ugene/plugins/libumuscle.so.1
  250. @comment lib/ugene/plugins/libumuscle.so.1.0
  251. @comment lib/ugene/plugins/libumuscle.so.1.0.0
  252. lib/ugene/plugins/libvariants.so
  253. lib/ugene/plugins/libvariants.so.1
  254. lib/ugene/plugins/libvariants.so.1.0
  255. lib/ugene/plugins/libvariants.so.1.0.0
  256. lib/ugene/plugins/libweight_matrix.so
  257. lib/ugene/plugins/libweight_matrix.so.1
  258. lib/ugene/plugins/libweight_matrix.so.1.0
  259. lib/ugene/plugins/libweight_matrix.so.1.0.0
  260. lib/ugene/plugins/libworkflow_designer.so
  261. lib/ugene/plugins/libworkflow_designer.so.1
  262. lib/ugene/plugins/libworkflow_designer.so.1.0
  263. lib/ugene/plugins/libworkflow_designer.so.1.0.0
  264. lib/ugene/plugins/linkdata_support.license
  265. lib/ugene/plugins/linkdata_support.plugin
  266. lib/ugene/plugins/opencl_support.license
  267. lib/ugene/plugins/opencl_support.plugin
  268. lib/ugene/plugins/orf_marker.license
  269. lib/ugene/plugins/orf_marker.plugin
  270. lib/ugene/plugins/pcr.license
  271. lib/ugene/plugins/pcr.plugin
  272. lib/ugene/plugins/perf_monitor.license
  273. lib/ugene/plugins/perf_monitor.plugin
  274. lib/ugene/plugins/phylip.license
  275. lib/ugene/plugins/phylip.plugin
  276. lib/ugene/plugins/primer3.license
  277. lib/ugene/plugins/primer3.plugin
  278. lib/ugene/plugins/psipred.license
  279. lib/ugene/plugins/psipred.plugin
  280. lib/ugene/plugins/ptools.license
  281. lib/ugene/plugins/ptools.plugin
  282. lib/ugene/plugins/query_designer.license
  283. lib/ugene/plugins/query_designer.plugin
  284. lib/ugene/plugins/remote_blast.license
  285. lib/ugene/plugins/remote_blast.plugin
  286. lib/ugene/plugins/remote_service.license
  287. lib/ugene/plugins/remote_service.plugin
  288. lib/ugene/plugins/repeat_finder.license
  289. lib/ugene/plugins/repeat_finder.plugin
  290. lib/ugene/plugins/sitecon.license
  291. lib/ugene/plugins/sitecon.plugin
  292. lib/ugene/plugins/smith_waterman.license
  293. lib/ugene/plugins/smith_waterman.plugin
  294. lib/ugene/plugins/test_runner.license
  295. lib/ugene/plugins/test_runner.plugin
  296. @comment lib/ugene/plugins/umuscle.license
  297. @comment lib/ugene/plugins/umuscle.plugin
  298. lib/ugene/plugins/variants.license
  299. lib/ugene/plugins/variants.plugin
  300. lib/ugene/plugins/weight_matrix.license
  301. lib/ugene/plugins/weight_matrix.plugin
  302. lib/ugene/plugins/workflow_designer.license
  303. lib/ugene/plugins/workflow_designer.plugin
  304. lib/ugene/plugins_checker
  305. lib/ugene/transl_en.qm
  306. lib/ugene/transl_ru.qm
  307. lib/ugene/ugene
  308. lib/ugene/ugenecl
  309. lib/ugene/ugenem
  310. lib/ugene/ugeneui
  311. man/man1/ugene.1.gz
  312. share/applications/ugene.desktop
  313. share/icons/application-x-ugene-ext.png
  314. share/mime/application-x-ugene.xml
  315. share/pixmaps/ugene.png
  316. share/pixmaps/ugene.xpm
  317. share/ugene/DBXRefRegistry.txt
  318. share/ugene/adapters/adapters.fasta
  319. share/ugene/back_translation/Bacteria/Arthrobacter_aurescens_TC1.cut
  320. share/ugene/back_translation/Bacteria/Bacillus_subtilis.cut
  321. share/ugene/back_translation/Bacteria/Escherichia_coli.cut
  322. share/ugene/back_translation/Bacteria/Haemophilus_influenzae.cut
  323. share/ugene/back_translation/Bacteria/Helicobacter_pylori.cut
  324. share/ugene/back_translation/Bacteria/Listeria_monocytogenes.cut
  325. share/ugene/back_translation/Bacteria/Neisseria_meningitidis.cut
  326. share/ugene/back_translation/Bacteria/Salmonella_typhimurium_LT2.cut
  327. share/ugene/back_translation/Bacteria/Streptomyces_coelicolor_A3(2).cut
  328. share/ugene/back_translation/Bacteria/Sulfolobus_solfataricus_P2.cut
  329. share/ugene/back_translation/Invertebrates/Apis_mellifera_(honey_bee).cut
  330. share/ugene/back_translation/Invertebrates/Caenorhabditis_elegans.cut
  331. share/ugene/back_translation/Invertebrates/Drosophila_melanogaster_(fruit_fly).cut
  332. share/ugene/back_translation/Invertebrates/Plasmodium_falciparum_(malaria_parasite_P._falciparum).cut
  333. share/ugene/back_translation/Invertebrates/mitochondrion_Caenorhabditis_elegans.cut
  334. share/ugene/back_translation/Invertebrates/mitochondrion_Drosophila_melanogaster_(fruit_fly).cut
  335. share/ugene/back_translation/Mammalia/Bos_taurus_(cow).cut
  336. share/ugene/back_translation/Mammalia/Canis_familiaris_(dog).cut
  337. share/ugene/back_translation/Mammalia/Sus_scrofa_(pig).cut
  338. share/ugene/back_translation/Mammalia/mitochondrion_Bos_taurus_(cow).cut
  339. share/ugene/back_translation/Mammalia/mitochondrion_Sus_scrofa_(pig).cut
  340. share/ugene/back_translation/Plants/Arabidopsis_thaliana_(thale_cress).cut
  341. share/ugene/back_translation/Plants/Oryza_sativa.cut
  342. share/ugene/back_translation/Plants/Zea_mays.cut
  343. share/ugene/back_translation/Primates/Homo_sapiens_(human).cut
  344. share/ugene/back_translation/Primates/Pan_troglodytes_(chimpanzee).cut
  345. share/ugene/back_translation/Primates/mitochondrion_Homo_sapiens_(human).cut
  346. share/ugene/back_translation/Primates/mitochondrion_Pan_troglodytes_(chimpanzee).cut
  347. share/ugene/back_translation/Rodents/Mus_musculus_(house_mouse).cut
  348. share/ugene/back_translation/Rodents/Rattus_norvegicus_(Norway_rat).cut
  349. share/ugene/back_translation/Vertebrates/Gallus_gallus_(chicken).cut
  350. share/ugene/back_translation/Vertebrates/Takifugu_rubripes_(Fugu_rubripes).cut
  351. share/ugene/back_translation/Vertebrates/Xenopus_laevis_(African_clawed_frog).cut
  352. share/ugene/back_translation/Vertebrates/mitochondrion_Gallus_gallus_(chicken).cut
  353. share/ugene/back_translation/Vertebrates/mitochondrion_Takifugu_rubripes_(Fugu_rubripes).cut
  354. share/ugene/back_translation/Viruses/Human_immunodeficiency_virus_1_(HIV-1).cut
  355. share/ugene/back_translation/Viruses/Influenza_A_virus.cut
  356. share/ugene/back_translation/Yeast/Saccharomyces_cerevisiae_(baker's_yeast).cut
  357. share/ugene/back_translation/tables.xml
  358. share/ugene/biostruct3d_plugin/BioStruct3DLinks.txt
  359. share/ugene/cmdline/align-clustalo.uwl
  360. share/ugene/cmdline/align-clustalw.uwl
  361. share/ugene/cmdline/align-kalign.uwl
  362. share/ugene/cmdline/align-mafft.uwl
  363. share/ugene/cmdline/align-tcoffee.uwl
  364. share/ugene/cmdline/align.uwl
  365. share/ugene/cmdline/convert-msa.uwl
  366. share/ugene/cmdline/convert-seq.uwl
  367. share/ugene/cmdline/extract-sequence.uwl
  368. share/ugene/cmdline/extract_consensus_sequence.uwl
  369. share/ugene/cmdline/extract_consensus_string.uwl
  370. share/ugene/cmdline/extract_coverage.uwl
  371. share/ugene/cmdline/fetch-sequence.uwl
  372. share/ugene/cmdline/find-orfs.uwl
  373. share/ugene/cmdline/find-repeats.uwl
  374. share/ugene/cmdline/find-sw.uwl
  375. share/ugene/cmdline/gene-by-gene.uwl
  376. share/ugene/cmdline/generate-dna.uwl
  377. share/ugene/cmdline/hmm2-build.uwl
  378. share/ugene/cmdline/hmm2-search.uwl
  379. share/ugene/cmdline/join-quality.uwl
  380. share/ugene/cmdline/local-blast+.uwl
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  907. share/ugene/position_weight_matrix/UniPROBE/Cell08/Gbx2_3110.1.pwm
  908. share/ugene/position_weight_matrix/UniPROBE/Cell08/Gsc_2327.3.pwm
  909. share/ugene/position_weight_matrix/UniPROBE/Cell08/Gsh2_3990.2.pwm
  910. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hdx_3845.3.pwm
  911. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hlx1_2350.1.pwm
  912. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hlxb9_3422.1.pwm
  913. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hmbox1_2674.1.pwm
  914. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hmx1_3423.1.pwm
  915. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hmx2_3424.3.pwm
  916. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hmx3_3490.2.pwm
  917. share/ugene/position_weight_matrix/UniPROBE/Cell08/Homez_1063.2.pwm
  918. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxa10_2318.1.pwm
  919. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxa11_2218.1.pwm
  920. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxa13_3126.1.pwm
  921. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxa1_3425.1.pwm
  922. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxa2_3079.1.pwm
  923. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxa3_2783.2.pwm
  924. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxa4_3426.1.pwm
  925. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxa5_3415.1.pwm
  926. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxa6_1040.1.pwm
  927. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxa7_2668.2.pwm
  928. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxa7_3750.1.pwm
  929. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxa9_2622.2.pwm
  930. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxb13_3479.1.pwm
  931. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxb3_1720.2.pwm
  932. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxb4_2627.1.pwm
  933. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxb5_3122.2.pwm
  934. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxb6_3428.2.pwm
  935. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxb7_3953.1.pwm
  936. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxb8_3780.2.pwm
  937. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxb9_3413.1.pwm
  938. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxc10_2779.2.pwm
  939. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxc11_3718.2.pwm
  940. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxc12_3480.1.pwm
  941. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxc13_3127.1.pwm
  942. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxc4_3491.1.pwm
  943. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxc5_2630.2.pwm
  944. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxc6_3954.2.pwm
  945. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxc8_3429.2.pwm
  946. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxc9_2367.2.pwm
  947. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxd10_2368.2.pwm
  948. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxd11_3873.1.pwm
  949. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxd12_3481.1.pwm
  950. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxd13_2356.1.pwm
  951. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxd1_3448.1.pwm
  952. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxd3_1742.2.pwm
  953. share/ugene/position_weight_matrix/UniPROBE/Cell08/Hoxd8_2644.1.pwm
  954. share/ugene/position_weight_matrix/UniPROBE/Cell08/Ipf1_3815.1.pwm
  955. share/ugene/position_weight_matrix/UniPROBE/Cell08/Irx2_0900.3.pwm
  956. share/ugene/position_weight_matrix/UniPROBE/Cell08/Irx3_0920.1.pwm
  957. share/ugene/position_weight_matrix/UniPROBE/Cell08/Irx3_2226.1.pwm
  958. share/ugene/position_weight_matrix/UniPROBE/Cell08/Irx4_2242.3.pwm
  959. share/ugene/position_weight_matrix/UniPROBE/Cell08/Irx5_2385.1.pwm
  960. share/ugene/position_weight_matrix/UniPROBE/Cell08/Irx6_2623.2.pwm
  961. share/ugene/position_weight_matrix/UniPROBE/Cell08/Isl2_3430.1.pwm
  962. share/ugene/position_weight_matrix/UniPROBE/Cell08/Isx_3445.1.pwm
  963. share/ugene/position_weight_matrix/UniPROBE/Cell08/Lbx2_3869.2.pwm
  964. share/ugene/position_weight_matrix/UniPROBE/Cell08/Lhx1_2240.2.pwm
  965. share/ugene/position_weight_matrix/UniPROBE/Cell08/Lhx2_0953.2.pwm
  966. share/ugene/position_weight_matrix/UniPROBE/Cell08/Lhx3_3431.1.pwm
  967. share/ugene/position_weight_matrix/UniPROBE/Cell08/Lhx4_1719.2.pwm
  968. share/ugene/position_weight_matrix/UniPROBE/Cell08/Lhx5_2279.1.pwm
  969. share/ugene/position_weight_matrix/UniPROBE/Cell08/Lhx6_2272.1.pwm
  970. share/ugene/position_weight_matrix/UniPROBE/Cell08/Lhx6_3432.1.pwm
  971. share/ugene/position_weight_matrix/UniPROBE/Cell08/Lhx8_2247.2.pwm
  972. share/ugene/position_weight_matrix/UniPROBE/Cell08/Lhx9_3492.1.pwm
  973. share/ugene/position_weight_matrix/UniPROBE/Cell08/Lmx1a_2238.2.pwm
  974. share/ugene/position_weight_matrix/UniPROBE/Cell08/Lmx1b_3433.2.pwm
  975. share/ugene/position_weight_matrix/UniPROBE/Cell08/Meis1_2335.1.pwm
  976. share/ugene/position_weight_matrix/UniPROBE/Cell08/Meox1_2310.2.pwm
  977. share/ugene/position_weight_matrix/UniPROBE/Cell08/Mrg1_2246.2.pwm
  978. share/ugene/position_weight_matrix/UniPROBE/Cell08/Mrg2_2302.1.pwm
  979. share/ugene/position_weight_matrix/UniPROBE/Cell08/Msx1_3031.2.pwm
  980. share/ugene/position_weight_matrix/UniPROBE/Cell08/Msx2_3449.1.pwm
  981. share/ugene/position_weight_matrix/UniPROBE/Cell08/Msx3_3206.1.pwm
  982. share/ugene/position_weight_matrix/UniPROBE/Cell08/Nkx1-1_3856.3.pwm
  983. share/ugene/position_weight_matrix/UniPROBE/Cell08/Nkx1-2_3214.1.pwm
  984. share/ugene/position_weight_matrix/UniPROBE/Cell08/Nkx2-2_2823.1.pwm
  985. share/ugene/position_weight_matrix/UniPROBE/Cell08/Nkx2-3_3435.1.pwm
  986. share/ugene/position_weight_matrix/UniPROBE/Cell08/Nkx2-4_3074.1.pwm
  987. share/ugene/position_weight_matrix/UniPROBE/Cell08/Nkx2-5_3436.1.pwm
  988. share/ugene/position_weight_matrix/UniPROBE/Cell08/Nkx2-6_3437.1.pwm
  989. share/ugene/position_weight_matrix/UniPROBE/Cell08/Nkx2-9_3082.1.pwm
  990. share/ugene/position_weight_matrix/UniPROBE/Cell08/Nkx3-1_2923.2.pwm
  991. share/ugene/position_weight_matrix/UniPROBE/Cell08/Nkx6-1_2825.1.pwm
  992. share/ugene/position_weight_matrix/UniPROBE/Cell08/Nkx6-1_2825.2.pwm
  993. share/ugene/position_weight_matrix/UniPROBE/Cell08/Nkx6-3_3446.1.pwm
  994. share/ugene/position_weight_matrix/UniPROBE/Cell08/Obox1_3970.2.pwm
  995. share/ugene/position_weight_matrix/UniPROBE/Cell08/Obox2_3438.2.pwm
  996. share/ugene/position_weight_matrix/UniPROBE/Cell08/Obox3_3439.1.pwm
  997. share/ugene/position_weight_matrix/UniPROBE/Cell08/Obox5_2284.1.pwm
  998. share/ugene/position_weight_matrix/UniPROBE/Cell08/Obox5_3963.2.pwm
  999. share/ugene/position_weight_matrix/UniPROBE/Cell08/Obox6_3440.2.pwm
  1000. share/ugene/position_weight_matrix/UniPROBE/Cell08/Og2x_3719.1.pwm
  1001. share/ugene/position_weight_matrix/UniPROBE/Cell08/Otp_3496.1.pwm
  1002. share/ugene/position_weight_matrix/UniPROBE/Cell08/Otx1_2325.1.pwm
  1003. share/ugene/position_weight_matrix/UniPROBE/Cell08/Otx2_3441.1.pwm
  1004. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pax4_3989.2.pwm
  1005. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pax6_3838.3.pwm
  1006. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pax7_3783.1.pwm
  1007. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pbx1_3203.1.pwm
  1008. share/ugene/position_weight_matrix/UniPROBE/Cell08/Phox2a_3947.1.pwm
  1009. share/ugene/position_weight_matrix/UniPROBE/Cell08/Phox2b_3948.1.pwm
  1010. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pitx1_2312.1.pwm
  1011. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pitx2_2274.3.pwm
  1012. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pitx3_3497.2.pwm
  1013. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pknox1_2364.2.pwm
  1014. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pknox2_3077.2.pwm
  1015. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pou1f1_3818.1.pwm
  1016. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pou2f1_3081.2.pwm
  1017. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pou2f2_3748.1.pwm
  1018. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pou2f3_3986.2.pwm
  1019. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pou3f1_3819.1.pwm
  1020. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pou3f2_2824.1.pwm
  1021. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pou3f3_3235.2.pwm
  1022. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pou3f4_3773.1.pwm
  1023. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pou4f3_2791.1.pwm
  1024. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pou6f1_1731.2.pwm
  1025. share/ugene/position_weight_matrix/UniPROBE/Cell08/Pou6f1_3733.1.pwm
  1026. share/ugene/position_weight_matrix/UniPROBE/Cell08/Prop1_3949.1.pwm
  1027. share/ugene/position_weight_matrix/UniPROBE/Cell08/Prrx1_3442.1.pwm
  1028. share/ugene/position_weight_matrix/UniPROBE/Cell08/Prrx2_3072.1.pwm
  1029. share/ugene/position_weight_matrix/UniPROBE/Cell08/Rax_3443.1.pwm
  1030. share/ugene/position_weight_matrix/UniPROBE/Cell08/Rhox11_1765.2.pwm
  1031. share/ugene/position_weight_matrix/UniPROBE/Cell08/Rhox11_2205.1.pwm
  1032. share/ugene/position_weight_matrix/UniPROBE/Cell08/Rhox6_4251.1.pwm
  1033. share/ugene/position_weight_matrix/UniPROBE/Cell08/Shox2_2641.2.pwm
  1034. share/ugene/position_weight_matrix/UniPROBE/Cell08/Six1_0935.2.pwm
  1035. share/ugene/position_weight_matrix/UniPROBE/Cell08/Six2_2307.2.pwm
  1036. share/ugene/position_weight_matrix/UniPROBE/Cell08/Six3_1732.2.pwm
  1037. share/ugene/position_weight_matrix/UniPROBE/Cell08/Six4_2860.1.pwm
  1038. share/ugene/position_weight_matrix/UniPROBE/Cell08/Six6_2267.4.pwm
  1039. share/ugene/position_weight_matrix/UniPROBE/Cell08/Six6_2267.5.pwm
  1040. share/ugene/position_weight_matrix/UniPROBE/Cell08/Tcf1_2666.2.pwm
  1041. share/ugene/position_weight_matrix/UniPROBE/Cell08/Tcf2_0913.2.pwm
  1042. share/ugene/position_weight_matrix/UniPROBE/Cell08/Tgif1_2342.2.pwm
  1043. share/ugene/position_weight_matrix/UniPROBE/Cell08/Tgif2_3451.1.pwm
  1044. share/ugene/position_weight_matrix/UniPROBE/Cell08/Titf1_1722.2.pwm
  1045. share/ugene/position_weight_matrix/UniPROBE/Cell08/Tlx2_3498.2.pwm
  1046. share/ugene/position_weight_matrix/UniPROBE/Cell08/Uncx4.1_2281.2.pwm
  1047. share/ugene/position_weight_matrix/UniPROBE/Cell08/Vax1_3499.1.pwm
  1048. share/ugene/position_weight_matrix/UniPROBE/Cell08/Vax2_3500.1.pwm
  1049. share/ugene/position_weight_matrix/UniPROBE/Cell08/Vsx1_1728.1.pwm
  1050. share/ugene/position_weight_matrix/UniPROBE/GR09/Aft1.pwm
  1051. share/ugene/position_weight_matrix/UniPROBE/GR09/Aro80.pwm
  1052. share/ugene/position_weight_matrix/UniPROBE/GR09/Asg1.pwm
  1053. share/ugene/position_weight_matrix/UniPROBE/GR09/Bas1.pwm
  1054. share/ugene/position_weight_matrix/UniPROBE/GR09/Cbf1.pwm
  1055. share/ugene/position_weight_matrix/UniPROBE/GR09/Cep3.pwm
  1056. share/ugene/position_weight_matrix/UniPROBE/GR09/Cha4.pwm
  1057. share/ugene/position_weight_matrix/UniPROBE/GR09/Cup9.pwm
  1058. share/ugene/position_weight_matrix/UniPROBE/GR09/Ecm22.pwm
  1059. share/ugene/position_weight_matrix/UniPROBE/GR09/Fhl1.pwm
  1060. share/ugene/position_weight_matrix/UniPROBE/GR09/Fkh1.pwm
  1061. share/ugene/position_weight_matrix/UniPROBE/GR09/Fkh2.pwm
  1062. share/ugene/position_weight_matrix/UniPROBE/GR09/Gal4.pwm
  1063. share/ugene/position_weight_matrix/UniPROBE/GR09/Gat1.pwm
  1064. share/ugene/position_weight_matrix/UniPROBE/GR09/Gat3.pwm
  1065. share/ugene/position_weight_matrix/UniPROBE/GR09/Gat4.pwm
  1066. share/ugene/position_weight_matrix/UniPROBE/GR09/Gcn4.pwm
  1067. share/ugene/position_weight_matrix/UniPROBE/GR09/Gln3.pwm
  1068. share/ugene/position_weight_matrix/UniPROBE/GR09/Gsm1.pwm
  1069. share/ugene/position_weight_matrix/UniPROBE/GR09/Gzf3.pwm
  1070. share/ugene/position_weight_matrix/UniPROBE/GR09/Hal9.pwm
  1071. share/ugene/position_weight_matrix/UniPROBE/GR09/Leu3.pwm
  1072. share/ugene/position_weight_matrix/UniPROBE/GR09/Lys14.pwm
  1073. share/ugene/position_weight_matrix/UniPROBE/GR09/Matalpha2.pwm
  1074. share/ugene/position_weight_matrix/UniPROBE/GR09/Mbp1.pwm
  1075. share/ugene/position_weight_matrix/UniPROBE/GR09/Mcm1.pwm
  1076. share/ugene/position_weight_matrix/UniPROBE/GR09/Met32.pwm
  1077. share/ugene/position_weight_matrix/UniPROBE/GR09/Mga1.pwm
  1078. share/ugene/position_weight_matrix/UniPROBE/GR09/Mig1.pwm
  1079. share/ugene/position_weight_matrix/UniPROBE/GR09/Mig2.pwm
  1080. share/ugene/position_weight_matrix/UniPROBE/GR09/Mig3.pwm
  1081. share/ugene/position_weight_matrix/UniPROBE/GR09/Ndt80.pwm
  1082. share/ugene/position_weight_matrix/UniPROBE/GR09/Nhp6a.pwm
  1083. share/ugene/position_weight_matrix/UniPROBE/GR09/Nhp6b.pwm
  1084. share/ugene/position_weight_matrix/UniPROBE/GR09/Nrg1.pwm
  1085. share/ugene/position_weight_matrix/UniPROBE/GR09/Oaf1.pwm
  1086. share/ugene/position_weight_matrix/UniPROBE/GR09/Pbf1.pwm
  1087. share/ugene/position_weight_matrix/UniPROBE/GR09/Pbf2.pwm
  1088. share/ugene/position_weight_matrix/UniPROBE/GR09/Pdr1.pwm
  1089. share/ugene/position_weight_matrix/UniPROBE/GR09/Phd1.pwm
  1090. share/ugene/position_weight_matrix/UniPROBE/GR09/Pho2.pwm
  1091. share/ugene/position_weight_matrix/UniPROBE/GR09/Pho4.pwm
  1092. share/ugene/position_weight_matrix/UniPROBE/GR09/Put3.pwm
  1093. share/ugene/position_weight_matrix/UniPROBE/GR09/Rap1.pwm
  1094. share/ugene/position_weight_matrix/UniPROBE/GR09/Rdr1.pwm
  1095. share/ugene/position_weight_matrix/UniPROBE/GR09/Rds1.pwm
  1096. share/ugene/position_weight_matrix/UniPROBE/GR09/Rds2.pwm
  1097. share/ugene/position_weight_matrix/UniPROBE/GR09/Rgt1.pwm
  1098. share/ugene/position_weight_matrix/UniPROBE/GR09/Rph1.pwm
  1099. share/ugene/position_weight_matrix/UniPROBE/GR09/Rpn4.pwm
  1100. share/ugene/position_weight_matrix/UniPROBE/GR09/Rsc3.pwm
  1101. share/ugene/position_weight_matrix/UniPROBE/GR09/Rsc30.pwm
  1102. share/ugene/position_weight_matrix/UniPROBE/GR09/Rtg3.pwm
  1103. share/ugene/position_weight_matrix/UniPROBE/GR09/Sfl1.pwm
  1104. share/ugene/position_weight_matrix/UniPROBE/GR09/Sfp1.pwm
  1105. share/ugene/position_weight_matrix/UniPROBE/GR09/Sip4.pwm
  1106. share/ugene/position_weight_matrix/UniPROBE/GR09/Skn7.pwm
  1107. share/ugene/position_weight_matrix/UniPROBE/GR09/Smp1.pwm
  1108. share/ugene/position_weight_matrix/UniPROBE/GR09/Spt15.pwm
  1109. share/ugene/position_weight_matrix/UniPROBE/GR09/Srd1.pwm
  1110. share/ugene/position_weight_matrix/UniPROBE/GR09/Stb3.pwm
  1111. share/ugene/position_weight_matrix/UniPROBE/GR09/Stp2.pwm
  1112. share/ugene/position_weight_matrix/UniPROBE/GR09/Stp4.pwm
  1113. share/ugene/position_weight_matrix/UniPROBE/GR09/Sum1.pwm
  1114. share/ugene/position_weight_matrix/UniPROBE/GR09/Sut2.pwm
  1115. share/ugene/position_weight_matrix/UniPROBE/GR09/Tbf1.pwm
  1116. share/ugene/position_weight_matrix/UniPROBE/GR09/Tbs1.pwm
  1117. share/ugene/position_weight_matrix/UniPROBE/GR09/Tea1.pwm
  1118. share/ugene/position_weight_matrix/UniPROBE/GR09/Tec1.pwm
  1119. share/ugene/position_weight_matrix/UniPROBE/GR09/Tye7.pwm
  1120. share/ugene/position_weight_matrix/UniPROBE/GR09/Ume6.pwm
  1121. share/ugene/position_weight_matrix/UniPROBE/GR09/Usv1.pwm
  1122. share/ugene/position_weight_matrix/UniPROBE/GR09/Xbp1.pwm
  1123. share/ugene/position_weight_matrix/UniPROBE/GR09/Yap1.pwm
  1124. share/ugene/position_weight_matrix/UniPROBE/GR09/Yap6.pwm
  1125. share/ugene/position_weight_matrix/UniPROBE/GR09/Ybr239c.pwm
  1126. share/ugene/position_weight_matrix/UniPROBE/GR09/Ydr520c.pwm
  1127. share/ugene/position_weight_matrix/UniPROBE/GR09/Yer130c.pwm
  1128. share/ugene/position_weight_matrix/UniPROBE/GR09/Ygr067c.pwm
  1129. share/ugene/position_weight_matrix/UniPROBE/GR09/Ykl222c.pwm
  1130. share/ugene/position_weight_matrix/UniPROBE/GR09/Yll054c.pwm
  1131. share/ugene/position_weight_matrix/UniPROBE/GR09/Yml081w.pwm
  1132. share/ugene/position_weight_matrix/UniPROBE/GR09/Ynr063w.pwm
  1133. share/ugene/position_weight_matrix/UniPROBE/GR09/Yox1.pwm
  1134. share/ugene/position_weight_matrix/UniPROBE/GR09/Ypr013c.pwm
  1135. share/ugene/position_weight_matrix/UniPROBE/GR09/Ypr015c.pwm
  1136. share/ugene/position_weight_matrix/UniPROBE/GR09/Ypr196w.pwm
  1137. share/ugene/position_weight_matrix/UniPROBE/GR09/Yrm1.pwm
  1138. share/ugene/position_weight_matrix/UniPROBE/GR09/Yrr1.pwm
  1139. share/ugene/position_weight_matrix/UniPROBE/NBT06/Cbf1.pwm
  1140. share/ugene/position_weight_matrix/UniPROBE/NBT06/Ceh-22.pwm
  1141. share/ugene/position_weight_matrix/UniPROBE/NBT06/Oct-1.pwm
  1142. share/ugene/position_weight_matrix/UniPROBE/NBT06/Rap1.pwm
  1143. share/ugene/position_weight_matrix/UniPROBE/NBT06/Zif268.pwm
  1144. share/ugene/position_weight_matrix/UniPROBE/PNAS08/Cgd2_3490.pwm
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  1152. share/ugene/query_samples/RepeatsWithORF.uql
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  1275. share/ugene/sitecon_models/prokaryotic/OmpR.sitecon.gz
  1276. share/ugene/sitecon_models/prokaryotic/OxyR.sitecon.gz
  1277. share/ugene/sitecon_models/prokaryotic/PHOB.sitecon.gz
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  1279. share/ugene/sitecon_models/prokaryotic/PurR.sitecon.gz
  1280. share/ugene/sitecon_models/prokaryotic/ROB.sitecon.gz
  1281. share/ugene/sitecon_models/prokaryotic/RcsB_1core.sitecon.gz
  1282. share/ugene/sitecon_models/prokaryotic/RcsB_2core.sitecon.gz
  1283. share/ugene/sitecon_models/prokaryotic/Rob2.sitecon.gz
  1284. share/ugene/sitecon_models/prokaryotic/TORR.sitecon.gz
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  1286. share/ugene/sitecon_models/prokaryotic/TyrR.sitecon.gz
  1287. share/ugene/sitecon_models/prokaryotic/fis_new1.sitecon.gz
  1288. share/ugene/sitecon_models/prokaryotic/soxS.sitecon.gz
  1289. share/ugene/snp_scripts/SNPChIPTools.py
  1290. share/ugene/snp_scripts/pdb_uniprot_chain_map.lst.2
  1291. share/ugene/snp_scripts/protstability1d.py
  1292. share/ugene/snp_scripts/protstability3d.py
  1293. share/ugene/snp_scripts/rsnp.py
  1294. share/ugene/snp_scripts/snp2pdbsite.py
  1295. share/ugene/snp_scripts/update_d_db.py
  1296. share/ugene/translations.txt
  1297. share/ugene/weight_matrix/blosum100.txt
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  1321. share/ugene/weight_matrix/nuc.4.4.txt
  1322. share/ugene/weight_matrix/pam10.txt
  1323. share/ugene/weight_matrix/pam100.txt
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  1379. share/ugene/weight_matrix/vtml160.txt
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  1381. share/ugene/workflow_samples/Alignment/basic_align.uwl
  1382. share/ugene/workflow_samples/Alignment/extract_msa_consensus_as_seq.uwl
  1383. share/ugene/workflow_samples/Alignment/extract_msa_consensus_as_text.uwl
  1384. share/ugene/workflow_samples/Conversions/faqual2fastq.uwl
  1385. share/ugene/workflow_samples/Conversions/msa2clustal.uwl
  1386. share/ugene/workflow_samples/Conversions/query2alignment.uwl
  1387. share/ugene/workflow_samples/Conversions/seq2gen.uwl
  1388. share/ugene/workflow_samples/Custom elements/casava-fastq-filter.uwl
  1389. share/ugene/workflow_samples/Custom elements/fastq-trimmer.uwl
  1390. share/ugene/workflow_samples/Custom elements/script-dump-sequence-info.uwl
  1391. share/ugene/workflow_samples/Custom elements/script-linkdata-fetch-seq.uwl
  1392. share/ugene/workflow_samples/Custom elements/script-quality-filter.uwl
  1393. share/ugene/workflow_samples/Data marking/annotation_marker.uwl
  1394. share/ugene/workflow_samples/Data marking/length_marker.uwl
  1395. share/ugene/workflow_samples/Data merging/find-substrings.uwl
  1396. share/ugene/workflow_samples/Data merging/merge-sequence.uwl
  1397. share/ugene/workflow_samples/Data merging/tfbs.uwl
  1398. share/ugene/workflow_samples/HMMER/build-test-HMM.uwl
  1399. share/ugene/workflow_samples/HMMER/searchHMM.uwl
  1400. share/ugene/workflow_samples/NGS/assembly/spades_paired.uwl
  1401. share/ugene/workflow_samples/NGS/assembly/spades_single.uwl
  1402. share/ugene/workflow_samples/NGS/assembly.uwl
  1403. share/ugene/workflow_samples/NGS/call_variants.uwl
  1404. share/ugene/workflow_samples/NGS/chipseq_coverage.uwl
  1405. share/ugene/workflow_samples/NGS/cistrome/chip_seq.uwl
  1406. share/ugene/workflow_samples/NGS/cistrome/chip_seq_with_control.uwl
  1407. share/ugene/workflow_samples/NGS/cistrome.uwl
  1408. share/ugene/workflow_samples/NGS/consensus.uwl
  1409. share/ugene/workflow_samples/NGS/extract_coverage.uwl
  1410. share/ugene/workflow_samples/NGS/extract_transcript_seq.uwl
  1411. share/ugene/workflow_samples/NGS/fastqc.uwl
  1412. share/ugene/workflow_samples/NGS/raw_chip.uwl
  1413. share/ugene/workflow_samples/NGS/raw_dna.uwl
  1414. share/ugene/workflow_samples/NGS/raw_ngs/chipseq/chipseq_paired.uwl
  1415. share/ugene/workflow_samples/NGS/raw_ngs/chipseq/chipseq_single.uwl
  1416. share/ugene/workflow_samples/NGS/raw_ngs/dnaseq/dna_paired.uwl
  1417. share/ugene/workflow_samples/NGS/raw_ngs/dnaseq/dna_single.uwl
  1418. share/ugene/workflow_samples/NGS/raw_ngs/rnaseq/rnaseq_filtration_paired.uwl
  1419. share/ugene/workflow_samples/NGS/raw_ngs/rnaseq/rnaseq_filtration_single.uwl
  1420. share/ugene/workflow_samples/NGS/raw_ngs/rnaseq/rnaseq_paired.uwl
  1421. share/ugene/workflow_samples/NGS/raw_ngs/rnaseq/rnaseq_single.uwl
  1422. share/ugene/workflow_samples/NGS/raw_rna.uwl
  1423. share/ugene/workflow_samples/NGS/tuxedo/tuxedo_main.uwl
  1424. share/ugene/workflow_samples/NGS/tuxedo/tuxedo_main_paired.uwl
  1425. share/ugene/workflow_samples/NGS/tuxedo/tuxedo_no_novel_transcr.uwl
  1426. share/ugene/workflow_samples/NGS/tuxedo/tuxedo_no_novel_transcr_paired.uwl
  1427. share/ugene/workflow_samples/NGS/tuxedo/tuxedo_single_dataset.uwl
  1428. share/ugene/workflow_samples/NGS/tuxedo/tuxedo_single_dataset_paired.uwl
  1429. share/ugene/workflow_samples/NGS/tuxedo.uwl
  1430. share/ugene/workflow_samples/NGS/unmapped_reads.uwl
  1431. share/ugene/workflow_samples/NGS/variation_annotation.uwl
  1432. share/ugene/workflow_samples/Sanger sequencing/trim-and-align.uwl
  1433. share/ugene/workflow_samples/Scenarios/filter_matched.uwl
  1434. share/ugene/workflow_samples/Scenarios/find_inverted_repeats.uwl
  1435. share/ugene/workflow_samples/Scenarios/find_sequences.uwl
  1436. share/ugene/workflow_samples/Scenarios/gene_by_gene_report.uwl
  1437. share/ugene/workflow_samples/Scenarios/group_primers_pairs.uwl
  1438. share/ugene/workflow_samples/Scenarios/intersect_annotations.uwl
  1439. share/ugene/workflow_samples/Scenarios/merge_sequence_annotation.uwl
  1440. share/ugene/workflow_samples/Scenarios/pcr.uwl
  1441. share/ugene/workflow_samples/Scenarios/remote_blasting.uwl
  1442. share/ugene/workflow_samples/Scenarios/translate_seq_and_compl.uwl
  1443. share/ugene/workflow_samples/Transcriptomics/SearchTFBS.uwl
  1444. share/ugene/workflow_samples/users/CASAVA FASTQ filter.usa
  1445. share/ugene/workflow_samples/users/Dump sequence info.usa
  1446. share/ugene/workflow_samples/users/FASTQ Trimmer.usa
  1447. share/ugene/workflow_samples/users/Get the first half of sequence.usa
  1448. share/ugene/workflow_samples/users/Get the second half of sequence.usa
  1449. share/ugene/workflow_samples/users/LinkData Fetch.usa
  1450. share/ugene/workflow_samples/users/QualityFilter.usa
  1451. share/ugene/workflow_samples/users/Read one sequence.usa
  1452. Collapse this list.

To install the port: cd /usr/ports/biology/ugene/ && make install clean
To add the package: pkg install ugene

PKGNAME: ugene

distinfo:

SHA256 (ugene/ugene-1.22.0.tar.gz) = ee46be799c9f02a9b6a89f13747a4918d5c96c01676dc2d4cc4a4c98278912b6
SIZE (ugene/ugene-1.22.0.tar.gz) = 20986853
SHA256 (ugene/QueryDesigner_UserManual.pdf) = 5d232c0de7e9d1fd32b8ee0a78f9f4abe1ab9d6536ec3958c47de29f3096faf4
SIZE (ugene/QueryDesigner_UserManual.pdf) = 855662
SHA256 (ugene/UniproUGENE_UserManual.pdf) = ae6aef32a6e92a30ba7c36cdd894a8caf634d678f15da7ad9eab52b6f40b9ed6
SIZE (ugene/UniproUGENE_UserManual.pdf) = 13443754
SHA256 (ugene/WorkflowDesigner_UserManual.pdf) = 8cc6630f62c82de42926c14c3d01ebc3c7d85ab7d9ec2a81e55a19740806735c
SIZE (ugene/WorkflowDesigner_UserManual.pdf) = 29474484


NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.

Build dependencies:
  1. update-desktop-database : devel/desktop-file-utils
  2. glproto.pc : x11/glproto
  3. dri2proto.pc : x11/dri2proto
  4. dri3proto.pc : x11/dri3proto
  5. moc : devel/qt5-buildtools
  6. lrelease : devel/qt5-linguisttools
  7. qmake : devel/qt5-qmake
  8. libQt5ScriptTools.so : devel/qt5-scripttools
Runtime dependencies:
  1. bash : shells/bash
  2. update-desktop-database : devel/desktop-file-utils
  3. libqtiff.so : graphics/qt5-imageformats
Library dependencies:
  1. libGLU.so : graphics/libGLU
  2. libQt5Gui.so : x11-toolkits/qt5-gui
  3. libQt5Network.so : net/qt5-network
  4. libQt5PrintSupport.so : print/qt5-printsupport
  5. libQt5Script.so : devel/qt5-script
  6. libQt5Sql.so : databases/qt5-sql
  7. libQt5Svg.so : graphics/qt5-svg
  8. libQt5WebKit.so : www/qt5-webkit
  9. libQt5Widgets.so : x11-toolkits/qt5-widgets
  10. libQt5Xml.so : textproc/qt5-xml
There are no ports dependent upon this port

Configuration Options
===> The following configuration options are available for ugene-1.22.0_2:
     DOCS=on: Install official UGENE documentation (PDF)
===> Use 'make config' to modify these settings

USES:
desktop-file-utils qmake qmake:_env

Master Sites:
  1. http://ugene.unipro.ru/downloads/

Number of commits found: 31

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
22 Sep 2017 10:48:29
Original commit files touched by this commit  1.22.0_2
Revision:450351
mat search for other commits by this committer
Remove USES=execinfo.

PR:		220271
Submitted by:	mat (review), Yasuhiro KIMURA (PR)
Sponsored by:	Absolight
Differential Revision:	https://reviews.freebsd.org/D11488
23 May 2017 05:03:16
Original commit files touched by this commit  1.22.0_2
Revision:441503
rezny search for other commits by this committer
Revision bump of all ports with USE_GL after consolidation of mesa-libs

Approved by:	swills (mentor)
Differential Revision:	https://reviews.freebsd.org/D10845
09 Jan 2017 13:16:50
Original commit files touched by this commit  1.22.0_1
Revision:430947
amdmi3 search for other commits by this committer
- Remove always-true/false conditions after FreeBSD 9, 10.1, 10.2 EOL

Approved by:	portmgr blanket
08 Nov 2016 19:29:57
Original commit files touched by this commit  1.22.0_1
Revision:425758
linimon search for other commits by this committer
The 64-bit arm arch is actually spelled 'aarch64', not 'arm64'.
08 Nov 2016 07:20:38
Original commit files touched by this commit  1.22.0_1
Revision:425689
linimon search for other commits by this committer
Mark as broken on arm64.

Approved by:	portmgr (tier-2 blanket)
07 May 2016 19:38:53
Original commit files touched by this commit  1.22.0_1
Revision:414784
dim search for other commits by this committer
During the exp-run in bug 208158, it was found that biology/ugene gives
errors with libc++ 3.8.0:

In file included from src/QScoreAdapter.cpp:1:
In file included from src/QScoreAdapter.h:4:
In file included from ../../include/U2Core/MAlignment.h:1:
In file included from
../../include/U2Core/../../corelibs/U2Core/src/datatype/MAlignment.h:25:
In file included from
../../include/U2Core/../../corelibs/U2Core/src/datatype/MAlignmentInfo.h:25:
In file included from /usr/local/include/qt5/QtCore/QString:1:
In file included from /usr/local/include/qt5/QtCore/qstring.h:41:
In file included from /usr/local/include/qt5/QtCore/qchar.h:37:
In file included from /usr/local/include/qt5/QtCore/qglobal.h:39:
/usr/include/c++/v1/cstddef:43:15: fatal error: 'stddef.h' file not found
#include_next <stddef.h>
              ^

This is because the port tries to add /usr/include as a system include
directory, using -isystem, and this screws up the order of include
directories.  Fix it by patching up a number of .pri files to avoid
using the -isystem flag.

Approved by:	h2+fbsdports@fsfe.org (maintainer)
PR:		209366
MFH:		2016Q2
14 Apr 2016 04:07:44
Original commit files touched by this commit  1.22.0
Revision:413242
danfe search for other commits by this committer
Update to version 1.22.0, which now unfortunately requires Qt 5.x.  Also
since around v1.18.0, UGENE is using Google's Breakpad library for crash
reporting, which is very system-specific and does not support FreeBSD at
the moment.  Due to lack of resources and interest in porting it, simply
disable crash reporting code for the time being.
01 Apr 2016 13:29:17
Original commit files touched by this commit  1.17.0_1
Revision:412344
mat search for other commits by this committer
Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.

With hat:	portmgr
Sponsored by:	Absolight
18 Aug 2015 20:02:46
Original commit files touched by this commit  1.17.0_1
Revision:394652
pgollucci search for other commits by this committer
biology/ugene: qt4-linguist -> qt4-linguisttools

- add USES=desktop-file-utils

PR:                  202138
Submitted by:        s3erios@gmail.com
Approved by:         h2+fbsdports@fsfe.org
15 Jul 2015 07:18:09
Original commit files touched by this commit  1.17.0
Revision:392119
danfe search for other commits by this committer
- Update Unipro UGENE to version 1.17.0 (documentation was also rerolled)
- Remove no longer required local source code tweaks (picked up upstream)
28 May 2015 08:12:00
Original commit files touched by this commit  1.16.2
Revision:387709
danfe search for other commits by this committer
Update Unipro UGENE to version 1.16.2.
23 Mar 2015 01:44:44
Original commit files touched by this commit  1.16.1
Revision:381974
danfe search for other commits by this committer
- Update to version 1.16.1
- Explicitly list all required Qt components in USE_QT4 instead of relying
  on them being silently picked up through `www/webkit-qt4' dependency
- Group *_build components together while here
- Remove one REINPLACE_CMD call that is no longer needed
24 Feb 2015 11:42:54
Original commit files touched by this commit  1.16.0
Revision:379787
danfe search for other commits by this committer
Update Unipro UGENE to version 1.16.0 (documentation was also rerolled).
06 Jan 2015 05:28:59
Original commit files touched by this commit  1.15.1
Revision:376383
danfe search for other commits by this committer
Update to version 1.15.1.
03 Dec 2014 01:40:55
Original commit files touched by this commit  1.15.0
Revision:373799
danfe search for other commits by this committer
Update to version 1.15.0.
20 Oct 2014 07:10:48
Original commit files touched by this commit  1.14.2
Revision:371237
bapt search for other commits by this committer
Cleanup plist
13 Oct 2014 11:01:52
Original commit files touched by this commit  1.14.2
Revision:370764
danfe search for other commits by this committer
Update to version 1.14.2.
10 Sep 2014 20:50:37
Original commit files touched by this commit  1.14.0_1
Revision:367888
gerald search for other commits by this committer
Update the default version of GCC in the Ports Collection from GCC 4.7.4
to GCC 4.8.3.

Part II, Bump PORTREVISIONs.

PR:		192025
Tested by:	antoine (-exp runs)
Approved by:	portmgr (implicit)
01 Sep 2014 07:39:00
Original commit files touched by this commit  1.14.0
Revision:366842
danfe search for other commits by this committer
- Update Unipro UGENE and documentation to version 1.14.0
- Remove patches integrated upstream (it's nice to have direct contact)
- Sort USES and pkg-plist, cleanup Makefile a bit while here

Approved by:	maintainer (implicit)
04 Aug 2014 23:06:21
Original commit files touched by this commit  1.13.1
Revision:364067
bapt search for other commits by this committer
USES=execinfo
07 Mar 2014 07:39:21
Original commit files touched by this commit  1.13.1
Revision:347340
danfe search for other commits by this committer
Update to version 1.13.1.
30 Jan 2014 13:38:26
Original commit files touched by this commit  1.13.0
Revision:341837
danfe search for other commits by this committer
Unbreak the fetch: one of the documentation PDF files was rerolled.
30 Jan 2014 13:11:41
Original commit files touched by this commit  1.13.0
Revision:341835
decke search for other commits by this committer
- Mark BROKEN because it does not fetch
16 Jan 2014 17:17:16
Original commit files touched by this commit  1.13.0
Revision:339938
danfe search for other commits by this committer
- Update to version 1.13.0 and improve FreeBSD support; it also builds
  pretty cleanly with GCC v4.2, v4.6, and Clang (modulo a few warnings)
- Sadly, do not use PORTDOCS: since DOCSDIR is set to be inside DATADIR,
  and will get appended to PLIST after @dirrm %%DATADIR%%, which upsets
  sanity checking tools; instead, list the docs explicitly in DISTFILES
  and add them to pkg-plist (guarded by %%PORTDOCS%%)

Tested on:	i386 (only)
01 Nov 2013 15:20:29
Original commit files touched by this commit  1.12.3
Revision:332391
danfe search for other commits by this committer
- Install official UGENE documentation (PDF)
- Utilize DIST_SUBDIR as now it's more than one distfile
31 Oct 2013 15:30:04
Original commit files touched by this commit  1.12.3
Revision:332256
danfe search for other commits by this committer
- Update to version 1.12.3
- Conditionalize dependency on `devel/libexecinfo'
- Try to detect SSE2 support
- Convert to USES=qmake and stafigy
- Improve grammar in port description while here

Approved by:	maintainer (implicit)
22 Oct 2013 13:57:35
Original commit files touched by this commit  1.11.4
Revision:331271
amdmi3 search for other commits by this committer
- Remove manual creation and removal of share/applications, as it's now in the
mtree (categories starting with [bce])

Approved by:	portmgr (bdrewery)
20 Sep 2013 15:55:44
Original commit files touched by this commit  1.11.4
Revision:327709
bapt search for other commits by this committer
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology)
14 Aug 2013 22:35:54
Original commit files touched by this commit  1.11.4
Revision:324744  Sanity Test Failure
ak search for other commits by this committer
- Remove MAKE_JOBS_SAFE variable

Approved by:	portmgr (bdrewery)
25 Feb 2013 13:00:16
Original commit files touched by this commit  1.11.4
Revision:312918
danfe search for other commits by this committer
Unbreak on 7.X and i386 systems.

Reported by:	QAT
23 Feb 2013 04:50:48
Original commit files touched by this commit  1.11.4
Revision:312798
danfe search for other commits by this committer
Add Unipro UGENE, a free open-source crowss-platform bioinformatics software.

PR:		ports/173387
Submitted by:	Hannes Hauswedell

Number of commits found: 31

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