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Port details
emboss Collection of open source tools for genetic sequence analysis
6.6.0_6 biology on this many watch lists=2 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 6.6.0_6Version of this port present on the latest quarterly branch.
Maintainer: wen@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2000-07-31 16:13:54
Last Update: 2021-09-24 21:34:20
Commit Hash: c68b6dc
People watching this port, also watch:: graphviz
License: GPLv2
Description:
SVNWeb : git : Homepage
pkg-plist: as obtained via: make generate-plist
Expand this list (2325 items)
Collapse this list.
  1. @ldconfig
  2. /usr/local/emboss/share/licenses/emboss-6.6.0_6/catalog.mk
  3. /usr/local/emboss/share/licenses/emboss-6.6.0_6/LICENSE
  4. /usr/local/emboss/share/licenses/emboss-6.6.0_6/GPLv2
  5. bin/aaindexextract
  6. bin/abiview
  7. bin/acdc
  8. bin/acdgalaxy
  9. bin/acdlog
  10. bin/acdpretty
  11. bin/acdtable
  12. bin/acdtrace
  13. bin/acdvalid
  14. bin/aligncopy
  15. bin/aligncopypair
  16. bin/antigenic
  17. bin/assemblyget
  18. bin/backtranambig
  19. bin/backtranseq
  20. bin/banana
  21. bin/biosed
  22. bin/btwisted
  23. bin/cachedas
  24. bin/cachedbfetch
  25. bin/cacheebeyesearch
  26. bin/cacheensembl
  27. bin/cai
  28. bin/chaos
  29. bin/charge
  30. bin/checktrans
  31. bin/chips
  32. bin/cirdna
  33. bin/codcmp
  34. bin/codcopy
  35. bin/coderet
  36. bin/compseq
  37. bin/cons
  38. bin/consambig
  39. bin/cpgplot
  40. bin/cpgreport
  41. bin/cusp
  42. bin/cutgextract
  43. bin/cutseq
  44. bin/dan
  45. bin/dbiblast
  46. bin/dbifasta
  47. bin/dbiflat
  48. bin/dbigcg
  49. bin/dbtell
  50. bin/dbxcompress
  51. bin/dbxedam
  52. bin/dbxfasta
  53. bin/dbxflat
  54. bin/dbxgcg
  55. bin/dbxobo
  56. bin/dbxreport
  57. bin/dbxresource
  58. bin/dbxstat
  59. bin/dbxtax
  60. bin/dbxuncompress
  61. bin/degapseq
  62. bin/density
  63. bin/descseq
  64. bin/diffseq
  65. bin/distmat
  66. bin/dotmatcher
  67. bin/dotpath
  68. bin/dottup
  69. bin/dreg
  70. bin/drfinddata
  71. bin/drfindformat
  72. bin/drfindid
  73. bin/drfindresource
  74. bin/drget
  75. bin/drtext
  76. bin/edamdef
  77. bin/edamhasinput
  78. bin/edamhasoutput
  79. bin/edamisformat
  80. bin/edamisid
  81. bin/edamname
  82. bin/edialign
  83. bin/einverted
  84. /usr/local/bin/emboss
  85. /usr/local/bin/emboss-shell
  86. bin/embossdata
  87. bin/embossupdate
  88. bin/embossversion
  89. bin/emma
  90. bin/emowse
  91. bin/entret
  92. bin/epestfind
  93. bin/eprimer3
  94. bin/eprimer32
  95. bin/equicktandem
  96. bin/est2genome
  97. bin/etandem
  98. bin/extractalign
  99. bin/extractfeat
  100. bin/extractseq
  101. bin/featcopy
  102. bin/featmerge
  103. bin/featreport
  104. bin/feattext
  105. bin/findkm
  106. bin/freak
  107. bin/fuzznuc
  108. bin/fuzzpro
  109. bin/fuzztran
  110. bin/garnier
  111. bin/geecee
  112. bin/getorf
  113. bin/godef
  114. bin/goname
  115. bin/helixturnhelix
  116. bin/hmoment
  117. bin/iep
  118. bin/infoalign
  119. bin/infoassembly
  120. bin/infobase
  121. bin/inforesidue
  122. bin/infoseq
  123. bin/isochore
  124. bin/jaspextract
  125. bin/jaspscan
  126. bin/jembossctl
  127. bin/lindna
  128. bin/listor
  129. bin/makenucseq
  130. bin/makeprotseq
  131. bin/marscan
  132. bin/maskambignuc
  133. bin/maskambigprot
  134. bin/maskfeat
  135. bin/maskseq
  136. bin/matcher
  137. bin/megamerger
  138. bin/merger
  139. bin/msbar
  140. bin/mwcontam
  141. bin/mwfilter
  142. bin/needle
  143. bin/needleall
  144. bin/newcpgreport
  145. bin/newcpgseek
  146. bin/newseq
  147. bin/nohtml
  148. bin/noreturn
  149. bin/nospace
  150. bin/notab
  151. bin/notseq
  152. bin/nthseq
  153. bin/nthseqset
  154. bin/octanol
  155. bin/oddcomp
  156. bin/ontocount
  157. bin/ontoget
  158. bin/ontogetcommon
  159. bin/ontogetdown
  160. bin/ontogetobsolete
  161. bin/ontogetroot
  162. bin/ontogetsibs
  163. bin/ontogetup
  164. bin/ontoisobsolete
  165. bin/ontotext
  166. bin/palindrome
  167. bin/pasteseq
  168. bin/patmatdb
  169. bin/patmatmotifs
  170. bin/pepcoil
  171. bin/pepdigest
  172. bin/pepinfo
  173. bin/pepnet
  174. bin/pepstats
  175. bin/pepwheel
  176. bin/pepwindow
  177. bin/pepwindowall
  178. bin/plotcon
  179. bin/plotorf
  180. bin/polydot
  181. bin/preg
  182. bin/prettyplot
  183. bin/prettyseq
  184. bin/primersearch
  185. bin/printsextract
  186. bin/profit
  187. bin/prophecy
  188. bin/prophet
  189. bin/prosextract
  190. bin/pscan
  191. bin/psiphi
  192. bin/rebaseextract
  193. bin/recoder
  194. bin/redata
  195. bin/refseqget
  196. bin/remap
  197. bin/restover
  198. bin/restrict
  199. bin/revseq
  200. bin/runJemboss.sh
  201. bin/seealso
  202. bin/seqcount
  203. bin/seqmatchall
  204. bin/seqret
  205. bin/seqretsetall
  206. bin/seqretsplit
  207. bin/seqxref
  208. bin/seqxrefget
  209. bin/servertell
  210. bin/showalign
  211. bin/showdb
  212. bin/showfeat
  213. bin/showorf
  214. bin/showpep
  215. bin/showserver
  216. bin/showseq
  217. bin/shuffleseq
  218. bin/sigcleave
  219. bin/silent
  220. bin/sirna
  221. bin/sixpack
  222. bin/sizeseq
  223. bin/skipredundant
  224. bin/skipseq
  225. bin/splitsource
  226. bin/splitter
  227. bin/stretcher
  228. bin/stssearch
  229. bin/supermatcher
  230. bin/syco
  231. bin/taxget
  232. bin/taxgetdown
  233. bin/taxgetrank
  234. bin/taxgetspecies
  235. bin/taxgetup
  236. bin/tcode
  237. bin/textget
  238. bin/textsearch
  239. bin/tfextract
  240. bin/tfm
  241. bin/tfscan
  242. bin/tmap
  243. bin/tranalign
  244. bin/transeq
  245. bin/trimest
  246. bin/trimseq
  247. bin/trimspace
  248. bin/twofeat
  249. bin/union
  250. bin/urlget
  251. bin/variationget
  252. bin/vectorstrip
  253. bin/water
  254. bin/whichdb
  255. bin/wobble
  256. bin/wordcount
  257. bin/wordfinder
  258. bin/wordmatch
  259. bin/wossdata
  260. bin/wossinput
  261. bin/wossname
  262. bin/wossoperation
  263. bin/wossoutput
  264. bin/wossparam
  265. bin/wosstopic
  266. bin/xmlget
  267. bin/xmltext
  268. bin/yank
  269. include/ajacd.h
  270. include/ajalign.h
  271. include/ajarch.h
  272. include/ajarr.h
  273. include/ajassem.h
  274. include/ajassemdata.h
  275. include/ajassemdb.h
  276. include/ajassemread.h
  277. include/ajassemwrite.h
  278. include/ajassert.h
  279. include/ajax.h
  280. include/ajbamindex.h
  281. include/ajbase.h
  282. include/ajcall.h
  283. include/ajcigar.h
  284. include/ajcod.h
  285. include/ajdan.h
  286. include/ajdas.h
  287. include/ajdefine.h
  288. include/ajdmx.h
  289. include/ajdom.h
  290. include/ajdomain.h
  291. include/ajexcept.h
  292. include/ajfeat.h
  293. include/ajfeatdata.h
  294. include/ajfeatdb.h
  295. include/ajfeatread.h
  296. include/ajfeatwrite.h
  297. include/ajfile.h
  298. include/ajfiledata.h
  299. include/ajfileio.h
  300. include/ajfmt.h
  301. include/ajftp.h
  302. include/ajgraph.h
  303. include/ajgraphstruct.h
  304. include/ajhist.h
  305. include/ajhttp.h
  306. include/ajindex.h
  307. include/ajjava.h
  308. include/ajlib.h
  309. include/ajlist.h
  310. include/ajmart.h
  311. include/ajmath.h
  312. include/ajmatrices.h
  313. include/ajmem.h
  314. include/ajmess.h
  315. include/ajnam.h
  316. include/ajnexus.h
  317. include/ajobo.h
  318. include/ajobodata.h
  319. include/ajobodb.h
  320. include/ajoboread.h
  321. include/ajobowrite.h
  322. include/ajpat.h
  323. include/ajpdb.h
  324. include/ajpdbio.h
  325. include/ajphylo.h
  326. include/ajquery.h
  327. include/ajquerydata.h
  328. include/ajrange.h
  329. include/ajrefseq.h
  330. include/ajrefseqdata.h
  331. include/ajrefseqdb.h
  332. include/ajrefseqread.h
  333. include/ajrefseqwrite.h
  334. include/ajreg.h
  335. include/ajreport.h
  336. include/ajresource.h
  337. include/ajresourcedata.h
  338. include/ajresourcedb.h
  339. include/ajresourceread.h
  340. include/ajresourcewrite.h
  341. include/ajseq.h
  342. include/ajseqabi.h
  343. include/ajseqbam.h
  344. include/ajseqdata.h
  345. include/ajseqdb.h
  346. include/ajseqread.h
  347. include/ajseqtype.h
  348. include/ajseqwrite.h
  349. include/ajsoap.h
  350. include/ajsort.h
  351. include/ajsql.h
  352. include/ajstr.h
  353. include/ajsys.h
  354. include/ajtable.h
  355. include/ajtagval.h
  356. include/ajtax.h
  357. include/ajtaxdata.h
  358. include/ajtaxdb.h
  359. include/ajtaxread.h
  360. include/ajtaxwrite.h
  361. include/ajtext.h
  362. include/ajtextdata.h
  363. include/ajtextdb.h
  364. include/ajtextread.h
  365. include/ajtextwrite.h
  366. include/ajtime.h
  367. include/ajtranslate.h
  368. include/ajtree.h
  369. include/ajurl.h
  370. include/ajurldata.h
  371. include/ajurldb.h
  372. include/ajurlread.h
  373. include/ajurlwrite.h
  374. include/ajutil.h
  375. include/ajvar.h
  376. include/ajvarbcf.h
  377. include/ajvardata.h
  378. include/ajvardb.h
  379. include/ajvarread.h
  380. include/ajvarwrite.h
  381. include/ajvector.h
  382. include/ajxml.h
  383. include/ajxmldata.h
  384. include/ajxmldb.h
  385. include/ajxmlread.h
  386. include/ajxmlwrite.h
  387. include/eexpat/ascii.h
  388. include/eexpat/asciitab.h
  389. include/eexpat/expat.h
  390. include/eexpat/expat_config.h
  391. include/eexpat/expat_external.h
  392. include/eexpat/expatemboss.h
  393. include/eexpat/iasciitab.h
  394. include/eexpat/internal.h
  395. include/eexpat/latin1tab.h
  396. include/eexpat/nametab.h
  397. include/eexpat/utf8tab.h
  398. include/eexpat/xmlrole.h
  399. include/eexpat/xmltok.h
  400. include/eexpat/xmltok_impl.h
  401. include/embaln.h
  402. include/embcom.h
  403. include/embcons.h
  404. include/embdata.h
  405. include/embdbi.h
  406. include/embdmx.h
  407. include/embdomain.h
  408. include/embest.h
  409. include/embexit.h
  410. include/embgroup.h
  411. include/embiep.h
  412. include/embindex.h
  413. include/embinit.h
  414. include/embmat.h
  415. include/embmisc.h
  416. include/embmol.h
  417. include/embnmer.h
  418. include/emboss.h
  419. include/embpat.h
  420. include/embpatlist.h
  421. include/embpdb.h
  422. include/embprop.h
  423. include/embread.h
  424. include/embshow.h
  425. include/embsig.h
  426. include/embword.h
  427. include/ensalign.h
  428. include/ensanalysis.h
  429. include/ensassemblyexception.h
  430. include/ensassembly.h
  431. include/ensassemblymapper.h
  432. include/ensattribute.h
  433. include/ensbaseadaptor.h
  434. include/enscache.h
  435. include/enscoordsystem.h
  436. include/ensdatabaseadaptor.h
  437. include/ensdatabaseconnection.h
  438. include/ensdatabaseentry.h
  439. include/ensdata.h
  440. include/ensdensity.h
  441. include/ensditag.h
  442. include/ensembl.h
  443. include/ensexon.h
  444. include/ensexternaldatabase.h
  445. include/ensfeature.h
  446. include/ensgene.h
  447. include/ensgvallele.h
  448. include/ensgvattribute.h
  449. include/ensgvbaseadaptor.h
  450. include/ensgvdatabaseadaptor.h
  451. include/ensgvdata.h
  452. include/ensgvgenotype.h
  453. include/ensgvindividual.h
  454. include/ensgvpopulation.h
  455. include/ensgvsample.h
  456. include/ensgvsource.h
  457. include/ensgvsynonym.h
  458. include/ensgvvariation.h
  459. include/ensintron.h
  460. include/enskaryotype.h
  461. include/ensmapper.h
  462. include/ensmarker.h
  463. include/ensmetacoordinate.h
  464. include/ensmetainformation.h
  465. include/ensmiscellaneous.h
  466. include/ensontology.h
  467. include/ensoperon.h
  468. include/ensprediction.h
  469. include/ensprojectionsegment.h
  470. include/ensprotein.h
  471. include/ensqcalignment.h
  472. include/ensqcdasfeature.h
  473. include/ensqcdatabase.h
  474. include/ensqc.h
  475. include/ensqcsequence.h
  476. include/ensqcsubmission.h
  477. include/ensqcvariation.h
  478. include/ensregistry.h
  479. include/ensrepeat.h
  480. include/ensseqregion.h
  481. include/enssequence.h
  482. include/enssequenceedit.h
  483. include/enssimple.h
  484. include/ensslice.h
  485. include/enssoftware.h
  486. include/ensstorable.h
  487. include/enstable.h
  488. include/enstranslation.h
  489. include/enstranscript.h
  490. include/ensutility.h
  491. include/ensvariation.h
  492. include/epcre/pcre.h
  493. include/epcre/pcre_config.h
  494. include/epcre/pcre_internal.h
  495. include/epcre/pcre_printint.src
  496. include/epcre/pcreemboss.h
  497. include/epcre/pcreposix.h
  498. include/epcre/ucp.h
  499. include/eplplot/disptab.h
  500. include/eplplot/drivers.h
  501. include/eplplot/metadefs.h
  502. include/eplplot/pdf.h
  503. include/eplplot/plConfig.h
  504. include/eplplot/plDevs.h
  505. include/eplplot/plcore.h
  506. include/eplplot/pldebug.h
  507. include/eplplot/pldll.h
  508. include/eplplot/plevent.h
  509. include/eplplot/plfci-type1.h
  510. include/eplplot/plhershey-unicode.h
  511. include/eplplot/plplot.h
  512. include/eplplot/plplotP.h
  513. include/eplplot/plstrm.h
  514. include/eplplot/plunicode-type1.h
  515. include/eplplot/plxwd.h
  516. include/eplplot/ps.h
  517. include/ezlib/crc32.h
  518. include/ezlib/deflate.h
  519. include/ezlib/gzguts.h
  520. include/ezlib/inffast.h
  521. include/ezlib/inffixed.h
  522. include/ezlib/inflate.h
  523. include/ezlib/inftrees.h
  524. include/ezlib/trees.h
  525. include/ezlib/zconf.h
  526. include/ezlib/zlib.h
  527. include/ezlib/zlibemboss.h
  528. include/ezlib/zutil.h
  529. lib/libacd.a
  530. lib/libacd.so
  531. lib/libacd.so.6
  532. lib/libacd.so.6.0.5
  533. lib/libajax.a
  534. lib/libajax.so
  535. lib/libajax.so.6
  536. lib/libajax.so.6.0.5
  537. lib/libajaxdb.a
  538. lib/libajaxdb.so
  539. lib/libajaxdb.so.6
  540. lib/libajaxdb.so.6.0.5
  541. lib/libajaxg.a
  542. lib/libajaxg.so
  543. lib/libajaxg.so.6
  544. lib/libajaxg.so.6.0.5
  545. lib/libeexpat.a
  546. lib/libeexpat.so
  547. lib/libeexpat.so.1
  548. lib/libeexpat.so.1.1.0
  549. lib/libensembl.a
  550. lib/libensembl.so
  551. lib/libensembl.so.6
  552. lib/libensembl.so.6.0.5
  553. lib/libepcre.a
  554. lib/libepcre.so
  555. lib/libepcre.so.7
  556. lib/libepcre.so.7.0.9
  557. lib/libeplplot.a
  558. lib/libeplplot.so
  559. lib/libeplplot.so.3
  560. lib/libeplplot.so.3.2.7
  561. lib/libezlib.a
  562. lib/libezlib.so
  563. lib/libezlib.so.1
  564. lib/libezlib.so.1.1.0
  565. lib/libnucleus.a
  566. lib/libnucleus.so
  567. lib/libnucleus.so.6
  568. lib/libnucleus.so.6.0.5
  569. share/EMBOSS/acd/aaindexextract.acd
  570. share/EMBOSS/acd/abiview.acd
  571. share/EMBOSS/acd/acdc.acd
  572. share/EMBOSS/acd/acdpretty.acd
  573. share/EMBOSS/acd/acdtable.acd
  574. share/EMBOSS/acd/acdtrace.acd
  575. share/EMBOSS/acd/acdvalid.acd
  576. share/EMBOSS/acd/aligncopy.acd
  577. share/EMBOSS/acd/aligncopypair.acd
  578. share/EMBOSS/acd/antigenic.acd
  579. share/EMBOSS/acd/assemblyget.acd
  580. share/EMBOSS/acd/backtranambig.acd
  581. share/EMBOSS/acd/backtranseq.acd
  582. share/EMBOSS/acd/banana.acd
  583. share/EMBOSS/acd/biosed.acd
  584. share/EMBOSS/acd/btwisted.acd
  585. share/EMBOSS/acd/cachedas.acd
  586. share/EMBOSS/acd/cachedbfetch.acd
  587. share/EMBOSS/acd/cacheebeyesearch.acd
  588. share/EMBOSS/acd/cacheensembl.acd
  589. share/EMBOSS/acd/cai.acd
  590. share/EMBOSS/acd/chaos.acd
  591. share/EMBOSS/acd/charge.acd
  592. share/EMBOSS/acd/checktrans.acd
  593. share/EMBOSS/acd/chips.acd
  594. share/EMBOSS/acd/cirdna.acd
  595. share/EMBOSS/acd/codcmp.acd
  596. share/EMBOSS/acd/codcopy.acd
  597. share/EMBOSS/acd/coderet.acd
  598. share/EMBOSS/acd/codes.english
  599. share/EMBOSS/acd/compseq.acd
  600. share/EMBOSS/acd/cons.acd
  601. share/EMBOSS/acd/consambig.acd
  602. share/EMBOSS/acd/cpgplot.acd
  603. share/EMBOSS/acd/cpgreport.acd
  604. share/EMBOSS/acd/cusp.acd
  605. share/EMBOSS/acd/cutgextract.acd
  606. share/EMBOSS/acd/cutseq.acd
  607. share/EMBOSS/acd/dan.acd
  608. share/EMBOSS/acd/dbiblast.acd
  609. share/EMBOSS/acd/dbifasta.acd
  610. share/EMBOSS/acd/dbiflat.acd
  611. share/EMBOSS/acd/dbigcg.acd
  612. share/EMBOSS/acd/dbtell.acd
  613. share/EMBOSS/acd/dbxcompress.acd
  614. share/EMBOSS/acd/dbxedam.acd
  615. share/EMBOSS/acd/dbxfasta.acd
  616. share/EMBOSS/acd/dbxflat.acd
  617. share/EMBOSS/acd/dbxgcg.acd
  618. share/EMBOSS/acd/dbxobo.acd
  619. share/EMBOSS/acd/dbxreport.acd
  620. share/EMBOSS/acd/dbxresource.acd
  621. share/EMBOSS/acd/dbxstat.acd
  622. share/EMBOSS/acd/dbxtax.acd
  623. share/EMBOSS/acd/dbxuncompress.acd
  624. share/EMBOSS/acd/degapseq.acd
  625. share/EMBOSS/acd/density.acd
  626. share/EMBOSS/acd/descseq.acd
  627. share/EMBOSS/acd/diffseq.acd
  628. share/EMBOSS/acd/digest.acd
  629. share/EMBOSS/acd/distmat.acd
  630. share/EMBOSS/acd/dotmatcher.acd
  631. share/EMBOSS/acd/dotpath.acd
  632. share/EMBOSS/acd/dottup.acd
  633. share/EMBOSS/acd/dreg.acd
  634. share/EMBOSS/acd/drfinddata.acd
  635. share/EMBOSS/acd/drfindformat.acd
  636. share/EMBOSS/acd/drfindid.acd
  637. share/EMBOSS/acd/drfindresource.acd
  638. share/EMBOSS/acd/drget.acd
  639. share/EMBOSS/acd/drtext.acd
  640. share/EMBOSS/acd/edamdef.acd
  641. share/EMBOSS/acd/edamhasinput.acd
  642. share/EMBOSS/acd/edamhasoutput.acd
  643. share/EMBOSS/acd/edamisformat.acd
  644. share/EMBOSS/acd/edamisid.acd
  645. share/EMBOSS/acd/edamname.acd
  646. share/EMBOSS/acd/edialign.acd
  647. share/EMBOSS/acd/einverted.acd
  648. share/EMBOSS/acd/embossdata.acd
  649. share/EMBOSS/acd/embossversion.acd
  650. share/EMBOSS/acd/embossupdate.acd
  651. share/EMBOSS/acd/emma.acd
  652. share/EMBOSS/acd/emowse.acd
  653. share/EMBOSS/acd/entret.acd
  654. share/EMBOSS/acd/epestfind.acd
  655. share/EMBOSS/acd/eprimer3.acd
  656. share/EMBOSS/acd/eprimer32.acd
  657. share/EMBOSS/acd/equicktandem.acd
  658. share/EMBOSS/acd/est2genome.acd
  659. share/EMBOSS/acd/etandem.acd
  660. share/EMBOSS/acd/extractalign.acd
  661. share/EMBOSS/acd/extractfeat.acd
  662. share/EMBOSS/acd/extractseq.acd
  663. share/EMBOSS/acd/featcopy.acd
  664. share/EMBOSS/acd/featmerge.acd
  665. share/EMBOSS/acd/featreport.acd
  666. share/EMBOSS/acd/feattext.acd
  667. share/EMBOSS/acd/findkm.acd
  668. share/EMBOSS/acd/freak.acd
  669. share/EMBOSS/acd/fuzznuc.acd
  670. share/EMBOSS/acd/fuzzpro.acd
  671. share/EMBOSS/acd/fuzztran.acd
  672. share/EMBOSS/acd/garnier.acd
  673. share/EMBOSS/acd/geecee.acd
  674. share/EMBOSS/acd/getorf.acd
  675. share/EMBOSS/acd/godef.acd
  676. share/EMBOSS/acd/goname.acd
  677. share/EMBOSS/acd/groups.standard
  678. share/EMBOSS/acd/helixturnhelix.acd
  679. share/EMBOSS/acd/hmoment.acd
  680. share/EMBOSS/acd/iep.acd
  681. share/EMBOSS/acd/infoalign.acd
  682. share/EMBOSS/acd/infoassembly.acd
  683. share/EMBOSS/acd/infobase.acd
  684. share/EMBOSS/acd/inforesidue.acd
  685. share/EMBOSS/acd/infoseq.acd
  686. share/EMBOSS/acd/isochore.acd
  687. share/EMBOSS/acd/jaspextract.acd
  688. share/EMBOSS/acd/jaspscan.acd
  689. share/EMBOSS/acd/keywords.standard
  690. share/EMBOSS/acd/knowntypes.standard
  691. share/EMBOSS/acd/lindna.acd
  692. share/EMBOSS/acd/listor.acd
  693. share/EMBOSS/acd/makenucseq.acd
  694. share/EMBOSS/acd/makeprotseq.acd
  695. share/EMBOSS/acd/marscan.acd
  696. share/EMBOSS/acd/maskambignuc.acd
  697. share/EMBOSS/acd/maskambigprot.acd
  698. share/EMBOSS/acd/maskfeat.acd
  699. share/EMBOSS/acd/maskseq.acd
  700. share/EMBOSS/acd/matcher.acd
  701. share/EMBOSS/acd/megamerger.acd
  702. share/EMBOSS/acd/merger.acd
  703. share/EMBOSS/acd/msbar.acd
  704. share/EMBOSS/acd/mwcontam.acd
  705. share/EMBOSS/acd/mwfilter.acd
  706. share/EMBOSS/acd/needle.acd
  707. share/EMBOSS/acd/needleall.acd
  708. share/EMBOSS/acd/newcpgreport.acd
  709. share/EMBOSS/acd/newcpgseek.acd
  710. share/EMBOSS/acd/newseq.acd
  711. share/EMBOSS/acd/nohtml.acd
  712. share/EMBOSS/acd/noreturn.acd
  713. share/EMBOSS/acd/nospace.acd
  714. share/EMBOSS/acd/notab.acd
  715. share/EMBOSS/acd/notseq.acd
  716. share/EMBOSS/acd/nthseq.acd
  717. share/EMBOSS/acd/nthseqset.acd
  718. share/EMBOSS/acd/octanol.acd
  719. share/EMBOSS/acd/oddcomp.acd
  720. share/EMBOSS/acd/ontocount.acd
  721. share/EMBOSS/acd/ontoget.acd
  722. share/EMBOSS/acd/ontogetcommon.acd
  723. share/EMBOSS/acd/ontogetdown.acd
  724. share/EMBOSS/acd/ontogetobsolete.acd
  725. share/EMBOSS/acd/ontogetroot.acd
  726. share/EMBOSS/acd/ontogetsibs.acd
  727. share/EMBOSS/acd/ontogetup.acd
  728. share/EMBOSS/acd/ontoisobsolete.acd
  729. share/EMBOSS/acd/ontotext.acd
  730. share/EMBOSS/acd/palindrome.acd
  731. share/EMBOSS/acd/pasteseq.acd
  732. share/EMBOSS/acd/patmatdb.acd
  733. share/EMBOSS/acd/patmatmotifs.acd
  734. share/EMBOSS/acd/pepcoil.acd
  735. share/EMBOSS/acd/pepdigest.acd
  736. share/EMBOSS/acd/pepinfo.acd
  737. share/EMBOSS/acd/pepnet.acd
  738. share/EMBOSS/acd/pepstats.acd
  739. share/EMBOSS/acd/pepwheel.acd
  740. share/EMBOSS/acd/pepwindow.acd
  741. share/EMBOSS/acd/pepwindowall.acd
  742. share/EMBOSS/acd/plotcon.acd
  743. share/EMBOSS/acd/plotorf.acd
  744. share/EMBOSS/acd/polydot.acd
  745. share/EMBOSS/acd/preg.acd
  746. share/EMBOSS/acd/prettyplot.acd
  747. share/EMBOSS/acd/prettyseq.acd
  748. share/EMBOSS/acd/primersearch.acd
  749. share/EMBOSS/acd/printsextract.acd
  750. share/EMBOSS/acd/profit.acd
  751. share/EMBOSS/acd/prophecy.acd
  752. share/EMBOSS/acd/prophet.acd
  753. share/EMBOSS/acd/prosextract.acd
  754. share/EMBOSS/acd/pscan.acd
  755. share/EMBOSS/acd/psiphi.acd
  756. share/EMBOSS/acd/rebaseextract.acd
  757. share/EMBOSS/acd/recoder.acd
  758. share/EMBOSS/acd/redata.acd
  759. share/EMBOSS/acd/refseqget.acd
  760. share/EMBOSS/acd/remap.acd
  761. share/EMBOSS/acd/restover.acd
  762. share/EMBOSS/acd/restrict.acd
  763. share/EMBOSS/acd/revseq.acd
  764. share/EMBOSS/acd/sections.standard
  765. share/EMBOSS/acd/seealso.acd
  766. share/EMBOSS/acd/seqcount.acd
  767. share/EMBOSS/acd/seqmatchall.acd
  768. share/EMBOSS/acd/seqret.acd
  769. share/EMBOSS/acd/seqretsetall.acd
  770. share/EMBOSS/acd/seqretsplit.acd
  771. share/EMBOSS/acd/seqxref.acd
  772. share/EMBOSS/acd/seqxrefget.acd
  773. share/EMBOSS/acd/servertell.acd
  774. share/EMBOSS/acd/showalign.acd
  775. share/EMBOSS/acd/showdb.acd
  776. share/EMBOSS/acd/showfeat.acd
  777. share/EMBOSS/acd/showorf.acd
  778. share/EMBOSS/acd/showpep.acd
  779. share/EMBOSS/acd/showseq.acd
  780. share/EMBOSS/acd/showserver.acd
  781. share/EMBOSS/acd/shuffleseq.acd
  782. share/EMBOSS/acd/sigcleave.acd
  783. share/EMBOSS/acd/silent.acd
  784. share/EMBOSS/acd/sirna.acd
  785. share/EMBOSS/acd/sixpack.acd
  786. share/EMBOSS/acd/sizeseq.acd
  787. share/EMBOSS/acd/skipredundant.acd
  788. share/EMBOSS/acd/skipseq.acd
  789. share/EMBOSS/acd/splitsource.acd
  790. share/EMBOSS/acd/splitter.acd
  791. share/EMBOSS/acd/stretcher.acd
  792. share/EMBOSS/acd/stssearch.acd
  793. share/EMBOSS/acd/supermatcher.acd
  794. share/EMBOSS/acd/syco.acd
  795. share/EMBOSS/acd/taxget.acd
  796. share/EMBOSS/acd/taxgetdown.acd
  797. share/EMBOSS/acd/taxgetrank.acd
  798. share/EMBOSS/acd/taxgetspecies.acd
  799. share/EMBOSS/acd/taxgetup.acd
  800. share/EMBOSS/acd/tcode.acd
  801. share/EMBOSS/acd/textget.acd
  802. share/EMBOSS/acd/textsearch.acd
  803. share/EMBOSS/acd/tfextract.acd
  804. share/EMBOSS/acd/tfm.acd
  805. share/EMBOSS/acd/tfscan.acd
  806. share/EMBOSS/acd/tmap.acd
  807. share/EMBOSS/acd/tranalign.acd
  808. share/EMBOSS/acd/transeq.acd
  809. share/EMBOSS/acd/trimest.acd
  810. share/EMBOSS/acd/trimseq.acd
  811. share/EMBOSS/acd/trimspace.acd
  812. share/EMBOSS/acd/twofeat.acd
  813. share/EMBOSS/acd/union.acd
  814. share/EMBOSS/acd/urlget.acd
  815. share/EMBOSS/acd/variables.standard
  816. share/EMBOSS/acd/variationget.acd
  817. share/EMBOSS/acd/vectorstrip.acd
  818. share/EMBOSS/acd/water.acd
  819. share/EMBOSS/acd/whichdb.acd
  820. share/EMBOSS/acd/wobble.acd
  821. share/EMBOSS/acd/wordcount.acd
  822. share/EMBOSS/acd/wordfinder.acd
  823. share/EMBOSS/acd/wordmatch.acd
  824. share/EMBOSS/acd/wossdata.acd
  825. share/EMBOSS/acd/wossinput.acd
  826. share/EMBOSS/acd/wossname.acd
  827. share/EMBOSS/acd/wossoperation.acd
  828. share/EMBOSS/acd/wossoutput.acd
  829. share/EMBOSS/acd/wossparam.acd
  830. share/EMBOSS/acd/wosstopic.acd
  831. share/EMBOSS/acd/xmlget.acd
  832. share/EMBOSS/acd/xmltext.acd
  833. share/EMBOSS/acd/yank.acd
  834. share/EMBOSS/data/AAINDEX/dummyfile
  835. share/EMBOSS/data/CODONS/Cut.index
  836. share/EMBOSS/data/CODONS/Eacc.cut
  837. share/EMBOSS/data/CODONS/Eacica.cut
  838. share/EMBOSS/data/CODONS/Eadenovirus5.cut
  839. share/EMBOSS/data/CODONS/Eadenovirus7.cut
  840. share/EMBOSS/data/CODONS/Eagrtu.cut
  841. share/EMBOSS/data/CODONS/Eaidlav.cut
  842. share/EMBOSS/data/CODONS/Eanasp.cut
  843. share/EMBOSS/data/CODONS/Eani.cut
  844. share/EMBOSS/data/CODONS/Eani_h.cut
  845. share/EMBOSS/data/CODONS/Eanidmit.cut
  846. share/EMBOSS/data/CODONS/Earath.cut
  847. share/EMBOSS/data/CODONS/Easn.cut
  848. share/EMBOSS/data/CODONS/Eath.cut
  849. share/EMBOSS/data/CODONS/Eatu.cut
  850. share/EMBOSS/data/CODONS/Eavi.cut
  851. share/EMBOSS/data/CODONS/Eazovi.cut
  852. share/EMBOSS/data/CODONS/Ebacme.cut
  853. share/EMBOSS/data/CODONS/Ebacst.cut
  854. share/EMBOSS/data/CODONS/Ebacsu.cut
  855. share/EMBOSS/data/CODONS/Ebacsu_high.cut
  856. share/EMBOSS/data/CODONS/Ebja.cut
  857. share/EMBOSS/data/CODONS/Ebly.cut
  858. share/EMBOSS/data/CODONS/Ebme.cut
  859. share/EMBOSS/data/CODONS/Ebmo.cut
  860. share/EMBOSS/data/CODONS/Ebna.cut
  861. share/EMBOSS/data/CODONS/Ebommo.cut
  862. share/EMBOSS/data/CODONS/Ebov.cut
  863. share/EMBOSS/data/CODONS/Ebovin.cut
  864. share/EMBOSS/data/CODONS/Ebovsp.cut
  865. share/EMBOSS/data/CODONS/Ebpphx.cut
  866. share/EMBOSS/data/CODONS/Ebraja.cut
  867. share/EMBOSS/data/CODONS/Ebrana.cut
  868. share/EMBOSS/data/CODONS/Ebrare.cut
  869. share/EMBOSS/data/CODONS/Ebst.cut
  870. share/EMBOSS/data/CODONS/Ebsu.cut
  871. share/EMBOSS/data/CODONS/Ebsu_h.cut
  872. share/EMBOSS/data/CODONS/Ecac.cut
  873. share/EMBOSS/data/CODONS/Ecaeel.cut
  874. share/EMBOSS/data/CODONS/Ecal.cut
  875. share/EMBOSS/data/CODONS/Ecanal.cut
  876. share/EMBOSS/data/CODONS/Ecanfa.cut
  877. share/EMBOSS/data/CODONS/Ecaucr.cut
  878. share/EMBOSS/data/CODONS/Eccr.cut
  879. share/EMBOSS/data/CODONS/Ecel.cut
  880. share/EMBOSS/data/CODONS/Echi.cut
  881. share/EMBOSS/data/CODONS/Echick.cut
  882. share/EMBOSS/data/CODONS/Echicken.cut
  883. share/EMBOSS/data/CODONS/Echisp.cut
  884. share/EMBOSS/data/CODONS/Echk.cut
  885. share/EMBOSS/data/CODONS/Echlre.cut
  886. share/EMBOSS/data/CODONS/Echltr.cut
  887. share/EMBOSS/data/CODONS/Echmp.cut
  888. share/EMBOSS/data/CODONS/Echnt.cut
  889. share/EMBOSS/data/CODONS/Echos.cut
  890. share/EMBOSS/data/CODONS/Echzm.cut
  891. share/EMBOSS/data/CODONS/Echzmrubp.cut
  892. share/EMBOSS/data/CODONS/Ecloab.cut
  893. share/EMBOSS/data/CODONS/Ecpx.cut
  894. share/EMBOSS/data/CODONS/Ecre.cut
  895. share/EMBOSS/data/CODONS/Ecrigr.cut
  896. share/EMBOSS/data/CODONS/Ecrisp.cut
  897. share/EMBOSS/data/CODONS/Ectr.cut
  898. share/EMBOSS/data/CODONS/Ecyapa.cut
  899. share/EMBOSS/data/CODONS/Edayhoff.cut
  900. share/EMBOSS/data/CODONS/Eddi.cut
  901. share/EMBOSS/data/CODONS/Eddi_h.cut
  902. share/EMBOSS/data/CODONS/Edicdi.cut
  903. share/EMBOSS/data/CODONS/Edicdi_high.cut
  904. share/EMBOSS/data/CODONS/Edog.cut
  905. share/EMBOSS/data/CODONS/Edro.cut
  906. share/EMBOSS/data/CODONS/Edro_h.cut
  907. share/EMBOSS/data/CODONS/Edrome.cut
  908. share/EMBOSS/data/CODONS/Edrome_high.cut
  909. share/EMBOSS/data/CODONS/Edrosophila.cut
  910. share/EMBOSS/data/CODONS/Eeca.cut
  911. share/EMBOSS/data/CODONS/Eeco.cut
  912. share/EMBOSS/data/CODONS/Eeco_h.cut
  913. share/EMBOSS/data/CODONS/Eecoli.cut
  914. share/EMBOSS/data/CODONS/Eecoli_high.cut
  915. share/EMBOSS/data/CODONS/Eemeni.cut
  916. share/EMBOSS/data/CODONS/Eemeni_high.cut
  917. share/EMBOSS/data/CODONS/Eemeni_mit.cut
  918. share/EMBOSS/data/CODONS/Eerwct.cut
  919. share/EMBOSS/data/CODONS/Ef1.cut
  920. share/EMBOSS/data/CODONS/Efish.cut
  921. share/EMBOSS/data/CODONS/Efmdvpolyp.cut
  922. share/EMBOSS/data/CODONS/Ehaein.cut
  923. share/EMBOSS/data/CODONS/Ehalma.cut
  924. share/EMBOSS/data/CODONS/Ehalsa.cut
  925. share/EMBOSS/data/CODONS/Eham.cut
  926. share/EMBOSS/data/CODONS/Ehha.cut
  927. share/EMBOSS/data/CODONS/Ehin.cut
  928. share/EMBOSS/data/CODONS/Ehma.cut
  929. share/EMBOSS/data/CODONS/Ehorvu.cut
  930. share/EMBOSS/data/CODONS/Ehum.cut
  931. share/EMBOSS/data/CODONS/Ehuman.cut
  932. share/EMBOSS/data/CODONS/Ekla.cut
  933. share/EMBOSS/data/CODONS/Eklepn.cut
  934. share/EMBOSS/data/CODONS/Eklula.cut
  935. share/EMBOSS/data/CODONS/Ekpn.cut
  936. share/EMBOSS/data/CODONS/Elacdl.cut
  937. share/EMBOSS/data/CODONS/Ella.cut
  938. share/EMBOSS/data/CODONS/Elyces.cut
  939. share/EMBOSS/data/CODONS/Emac.cut
  940. share/EMBOSS/data/CODONS/Emacfa.cut
  941. share/EMBOSS/data/CODONS/Emaize.cut
  942. share/EMBOSS/data/CODONS/Emaize_chl.cut
  943. share/EMBOSS/data/CODONS/Emam_h.cut
  944. share/EMBOSS/data/CODONS/Emammal_high.cut
  945. share/EMBOSS/data/CODONS/Emanse.cut
  946. share/EMBOSS/data/CODONS/Emarpo_chl.cut
  947. share/EMBOSS/data/CODONS/Emedsa.cut
  948. share/EMBOSS/data/CODONS/Emetth.cut
  949. share/EMBOSS/data/CODONS/Emixlg.cut
  950. share/EMBOSS/data/CODONS/Emouse.cut
  951. share/EMBOSS/data/CODONS/Emsa.cut
  952. share/EMBOSS/data/CODONS/Emse.cut
  953. share/EMBOSS/data/CODONS/Emta.cut
  954. share/EMBOSS/data/CODONS/Emtu.cut
  955. share/EMBOSS/data/CODONS/Emus.cut
  956. share/EMBOSS/data/CODONS/Emussp.cut
  957. share/EMBOSS/data/CODONS/Emva.cut
  958. share/EMBOSS/data/CODONS/Emyctu.cut
  959. share/EMBOSS/data/CODONS/Emze.cut
  960. share/EMBOSS/data/CODONS/Emzecp.cut
  961. share/EMBOSS/data/CODONS/Encr.cut
  962. share/EMBOSS/data/CODONS/Eneigo.cut
  963. share/EMBOSS/data/CODONS/Eneu.cut
  964. share/EMBOSS/data/CODONS/Eneucr.cut
  965. share/EMBOSS/data/CODONS/Engo.cut
  966. share/EMBOSS/data/CODONS/Eoncmy.cut
  967. share/EMBOSS/data/CODONS/Eoncsp.cut
  968. share/EMBOSS/data/CODONS/Eorysa.cut
  969. share/EMBOSS/data/CODONS/Eorysa_chl.cut
  970. share/EMBOSS/data/CODONS/Epae.cut
  971. share/EMBOSS/data/CODONS/Epea.cut
  972. share/EMBOSS/data/CODONS/Epet.cut
  973. share/EMBOSS/data/CODONS/Epethy.cut
  974. share/EMBOSS/data/CODONS/Epfa.cut
  975. share/EMBOSS/data/CODONS/Ephavu.cut
  976. share/EMBOSS/data/CODONS/Ephix174.cut
  977. share/EMBOSS/data/CODONS/Ephv.cut
  978. share/EMBOSS/data/CODONS/Ephy.cut
  979. share/EMBOSS/data/CODONS/Epig.cut
  980. share/EMBOSS/data/CODONS/Eplafa.cut
  981. share/EMBOSS/data/CODONS/Epolyomaa2.cut
  982. share/EMBOSS/data/CODONS/Epombe.cut
  983. share/EMBOSS/data/CODONS/Epombecai.cut
  984. share/EMBOSS/data/CODONS/Epot.cut
  985. share/EMBOSS/data/CODONS/Eppu.cut
  986. share/EMBOSS/data/CODONS/Eprovu.cut
  987. share/EMBOSS/data/CODONS/Epse.cut
  988. share/EMBOSS/data/CODONS/Epseae.cut
  989. share/EMBOSS/data/CODONS/Epsepu.cut
  990. share/EMBOSS/data/CODONS/Epsesm.cut
  991. share/EMBOSS/data/CODONS/Epsy.cut
  992. share/EMBOSS/data/CODONS/Epvu.cut
  993. share/EMBOSS/data/CODONS/Erab.cut
  994. share/EMBOSS/data/CODONS/Erabbit.cut
  995. share/EMBOSS/data/CODONS/Erabit.cut
  996. share/EMBOSS/data/CODONS/Erabsp.cut
  997. share/EMBOSS/data/CODONS/Erat.cut
  998. share/EMBOSS/data/CODONS/Eratsp.cut
  999. share/EMBOSS/data/CODONS/Erca.cut
  1000. share/EMBOSS/data/CODONS/Erhile.cut
  1001. share/EMBOSS/data/CODONS/Erhime.cut
  1002. share/EMBOSS/data/CODONS/Erhm.cut
  1003. share/EMBOSS/data/CODONS/Erhoca.cut
  1004. share/EMBOSS/data/CODONS/Erhosh.cut
  1005. share/EMBOSS/data/CODONS/Eric.cut
  1006. share/EMBOSS/data/CODONS/Erle.cut
  1007. share/EMBOSS/data/CODONS/Erme.cut
  1008. share/EMBOSS/data/CODONS/Ersp.cut
  1009. share/EMBOSS/data/CODONS/Esalsa.cut
  1010. share/EMBOSS/data/CODONS/Esalsp.cut
  1011. share/EMBOSS/data/CODONS/Esalty.cut
  1012. share/EMBOSS/data/CODONS/Esau.cut
  1013. share/EMBOSS/data/CODONS/Eschma.cut
  1014. share/EMBOSS/data/CODONS/Eschpo.cut
  1015. share/EMBOSS/data/CODONS/Eschpo_cai.cut
  1016. share/EMBOSS/data/CODONS/Eschpo_high.cut
  1017. share/EMBOSS/data/CODONS/Esco.cut
  1018. share/EMBOSS/data/CODONS/Eserma.cut
  1019. share/EMBOSS/data/CODONS/Esgi.cut
  1020. share/EMBOSS/data/CODONS/Esheep.cut
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  2142. share/EMBOSS/doc/programs/text/tfscan.txt
  2143. share/EMBOSS/doc/programs/text/tmap.txt
  2144. share/EMBOSS/doc/programs/text/tranalign.txt
  2145. share/EMBOSS/doc/programs/text/transeq.txt
  2146. share/EMBOSS/doc/programs/text/trimest.txt
  2147. share/EMBOSS/doc/programs/text/trimseq.txt
  2148. share/EMBOSS/doc/programs/text/trimspace.txt
  2149. share/EMBOSS/doc/programs/text/twofeat.txt
  2150. share/EMBOSS/doc/programs/text/union.txt
  2151. share/EMBOSS/doc/programs/text/vectorstrip.txt
  2152. share/EMBOSS/doc/programs/text/water.txt
  2153. share/EMBOSS/doc/programs/text/whichdb.txt
  2154. share/EMBOSS/doc/programs/text/wobble.txt
  2155. share/EMBOSS/doc/programs/text/wordcount.txt
  2156. share/EMBOSS/doc/programs/text/wordfinder.txt
  2157. share/EMBOSS/doc/programs/text/wordmatch.txt
  2158. share/EMBOSS/doc/programs/text/wossname.txt
  2159. share/EMBOSS/doc/programs/text/yank.txt
  2160. share/EMBOSS/doc/tutorials/emboss-gcg.ppt
  2161. share/EMBOSS/doc/tutorials/emboss-interfaces.ppt
  2162. share/EMBOSS/doc/tutorials/emboss-talk.ppt
  2163. share/EMBOSS/doc/tutorials/emboss_tut.tar.gz
  2164. share/EMBOSS/doc/programs/html/alignment_group.html
  2165. share/EMBOSS/doc/programs/html/assemblyget.html
  2166. share/EMBOSS/doc/programs/html/cachedas.html
  2167. share/EMBOSS/doc/programs/html/cachedbfetch.html
  2168. share/EMBOSS/doc/programs/html/cacheebeyesearch.html
  2169. share/EMBOSS/doc/programs/html/cacheensembl.html
  2170. share/EMBOSS/doc/programs/html/data_resources_group.html
  2171. share/EMBOSS/doc/programs/html/data_retrieval_chemistry_data_group.html
  2172. share/EMBOSS/doc/programs/html/data_retrieval_feature_data_group.html
  2173. share/EMBOSS/doc/programs/html/data_retrieval_group.html
  2174. share/EMBOSS/doc/programs/html/data_retrieval_ontology_data_group.html
  2175. share/EMBOSS/doc/programs/html/data_retrieval_resource_data_group.html
  2176. share/EMBOSS/doc/programs/html/data_retrieval_sequence_data_assembly_data_group.html
  2177. share/EMBOSS/doc/programs/html/data_retrieval_sequence_data_group.html
  2178. share/EMBOSS/doc/programs/html/data_retrieval_text_data_group.html
  2179. share/EMBOSS/doc/programs/html/data_retrieval_tool_data_group.html
  2180. share/EMBOSS/doc/programs/html/data_retrieval_url_data_group.html
  2181. share/EMBOSS/doc/programs/html/dbtell.html
  2182. share/EMBOSS/doc/programs/html/dbxcompress.html
  2183. share/EMBOSS/doc/programs/html/dbxedam.html
  2184. share/EMBOSS/doc/programs/html/dbxobo.html
  2185. share/EMBOSS/doc/programs/html/dbxreport.html
  2186. share/EMBOSS/doc/programs/html/dbxresource.html
  2187. share/EMBOSS/doc/programs/html/dbxstat.html
  2188. share/EMBOSS/doc/programs/html/dbxtax.html
  2189. share/EMBOSS/doc/programs/html/dbxuncompress.html
  2190. share/EMBOSS/doc/programs/html/density.1.density.gif
  2191. share/EMBOSS/doc/programs/html/density.2.density.gif
  2192. share/EMBOSS/doc/programs/html/density.3.density.gif
  2193. share/EMBOSS/doc/programs/html/documentation_group.html
  2194. share/EMBOSS/doc/programs/html/drfinddata.html
  2195. share/EMBOSS/doc/programs/html/drfindformat.html
  2196. share/EMBOSS/doc/programs/html/drfindid.html
  2197. share/EMBOSS/doc/programs/html/drfindresource.html
  2198. share/EMBOSS/doc/programs/html/drget.html
  2199. share/EMBOSS/doc/programs/html/drtext.html
  2200. share/EMBOSS/doc/programs/html/edamdef.html
  2201. share/EMBOSS/doc/programs/html/edamhasinput.html
  2202. share/EMBOSS/doc/programs/html/edamhasoutput.html
  2203. share/EMBOSS/doc/programs/html/edamisformat.html
  2204. share/EMBOSS/doc/programs/html/edamisid.html
  2205. share/EMBOSS/doc/programs/html/edamname.html
  2206. share/EMBOSS/doc/programs/html/embossupdate.html
  2207. share/EMBOSS/doc/programs/html/eprimer32.html
  2208. share/EMBOSS/doc/programs/html/featmerge.html
  2209. share/EMBOSS/doc/programs/html/feattext.html
  2210. share/EMBOSS/doc/programs/html/godef.html
  2211. share/EMBOSS/doc/programs/html/goname.html
  2212. share/EMBOSS/doc/programs/html/infoassembly.html
  2213. share/EMBOSS/doc/programs/html/nucleic_functional_sites_group.html
  2214. share/EMBOSS/doc/programs/html/nucleic_properties_group.html
  2215. share/EMBOSS/doc/programs/html/ontocount.html
  2216. share/EMBOSS/doc/programs/html/ontoget.html
  2217. share/EMBOSS/doc/programs/html/ontogetcommon.html
  2218. share/EMBOSS/doc/programs/html/ontogetdown.html
  2219. share/EMBOSS/doc/programs/html/ontogetobsolete.html
  2220. share/EMBOSS/doc/programs/html/ontogetroot.html
  2221. share/EMBOSS/doc/programs/html/ontogetsibs.html
  2222. share/EMBOSS/doc/programs/html/ontogetup.html
  2223. share/EMBOSS/doc/programs/html/ontoisobsolete.html
  2224. share/EMBOSS/doc/programs/html/ontology_edam_group.html
  2225. share/EMBOSS/doc/programs/html/ontology_go_group.html
  2226. share/EMBOSS/doc/programs/html/ontology_group.html
  2227. share/EMBOSS/doc/programs/html/ontology_taxonomy_group.html
  2228. share/EMBOSS/doc/programs/html/ontotext.html
  2229. share/EMBOSS/doc/programs/html/pepdigest.html
  2230. share/EMBOSS/doc/programs/html/protein_domains_group.html
  2231. share/EMBOSS/doc/programs/html/protein_functional_sites_group.html
  2232. share/EMBOSS/doc/programs/html/protein_modifications_group.html
  2233. share/EMBOSS/doc/programs/html/protein_properties_group.html
  2234. share/EMBOSS/doc/programs/html/refseqget.html
  2235. share/EMBOSS/doc/programs/html/seqcount.html
  2236. share/EMBOSS/doc/programs/html/seqxref.html
  2237. share/EMBOSS/doc/programs/html/seqxrefget.html
  2238. share/EMBOSS/doc/programs/html/servertell.html
  2239. share/EMBOSS/doc/programs/html/showserver.html
  2240. share/EMBOSS/doc/programs/html/taxget.html
  2241. share/EMBOSS/doc/programs/html/taxgetdown.html
  2242. share/EMBOSS/doc/programs/html/taxgetrank.html
  2243. share/EMBOSS/doc/programs/html/taxgetspecies.html
  2244. share/EMBOSS/doc/programs/html/taxgetup.html
  2245. share/EMBOSS/doc/programs/html/textget.html
  2246. share/EMBOSS/doc/programs/html/urlget.html
  2247. share/EMBOSS/doc/programs/html/utils_group.html
  2248. share/EMBOSS/doc/programs/html/variationget.html
  2249. share/EMBOSS/doc/programs/html/wossdata.html
  2250. share/EMBOSS/doc/programs/html/wossinput.html
  2251. share/EMBOSS/doc/programs/html/wossoperation.html
  2252. share/EMBOSS/doc/programs/html/wossoutput.html
  2253. share/EMBOSS/doc/programs/html/wossparam.html
  2254. share/EMBOSS/doc/programs/html/wosstopic.html
  2255. share/EMBOSS/doc/programs/html/xmlget.html
  2256. share/EMBOSS/doc/programs/html/xmltext.html
  2257. share/EMBOSS/doc/programs/text/assemblyget.txt
  2258. share/EMBOSS/doc/programs/text/cachedas.txt
  2259. share/EMBOSS/doc/programs/text/cachedbfetch.txt
  2260. share/EMBOSS/doc/programs/text/cacheebeyesearch.txt
  2261. share/EMBOSS/doc/programs/text/cacheensembl.txt
  2262. share/EMBOSS/doc/programs/text/dbtell.txt
  2263. share/EMBOSS/doc/programs/text/dbxcompress.txt
  2264. share/EMBOSS/doc/programs/text/dbxedam.txt
  2265. share/EMBOSS/doc/programs/text/dbxobo.txt
  2266. share/EMBOSS/doc/programs/text/dbxreport.txt
  2267. share/EMBOSS/doc/programs/text/dbxresource.txt
  2268. share/EMBOSS/doc/programs/text/dbxstat.txt
  2269. share/EMBOSS/doc/programs/text/dbxtax.txt
  2270. share/EMBOSS/doc/programs/text/dbxuncompress.txt
  2271. share/EMBOSS/doc/programs/text/drfinddata.txt
  2272. share/EMBOSS/doc/programs/text/drfindformat.txt
  2273. share/EMBOSS/doc/programs/text/drfindid.txt
  2274. share/EMBOSS/doc/programs/text/drfindresource.txt
  2275. share/EMBOSS/doc/programs/text/drget.txt
  2276. share/EMBOSS/doc/programs/text/drtext.txt
  2277. share/EMBOSS/doc/programs/text/edamdef.txt
  2278. share/EMBOSS/doc/programs/text/edamhasinput.txt
  2279. share/EMBOSS/doc/programs/text/edamhasoutput.txt
  2280. share/EMBOSS/doc/programs/text/edamisformat.txt
  2281. share/EMBOSS/doc/programs/text/edamisid.txt
  2282. share/EMBOSS/doc/programs/text/edamname.txt
  2283. share/EMBOSS/doc/programs/text/embossupdate.txt
  2284. share/EMBOSS/doc/programs/text/eprimer32.txt
  2285. share/EMBOSS/doc/programs/text/featmerge.txt
  2286. share/EMBOSS/doc/programs/text/feattext.txt
  2287. share/EMBOSS/doc/programs/text/godef.txt
  2288. share/EMBOSS/doc/programs/text/goname.txt
  2289. share/EMBOSS/doc/programs/text/infoassembly.txt
  2290. share/EMBOSS/doc/programs/text/ontocount.txt
  2291. share/EMBOSS/doc/programs/text/ontoget.txt
  2292. share/EMBOSS/doc/programs/text/ontogetcommon.txt
  2293. share/EMBOSS/doc/programs/text/ontogetdown.txt
  2294. share/EMBOSS/doc/programs/text/ontogetobsolete.txt
  2295. share/EMBOSS/doc/programs/text/ontogetroot.txt
  2296. share/EMBOSS/doc/programs/text/ontogetsibs.txt
  2297. share/EMBOSS/doc/programs/text/ontogetup.txt
  2298. share/EMBOSS/doc/programs/text/ontoisobsolete.txt
  2299. share/EMBOSS/doc/programs/text/ontotext.txt
  2300. share/EMBOSS/doc/programs/text/pepdigest.txt
  2301. share/EMBOSS/doc/programs/text/refseqget.txt
  2302. share/EMBOSS/doc/programs/text/seqcount.txt
  2303. share/EMBOSS/doc/programs/text/seqxref.txt
  2304. share/EMBOSS/doc/programs/text/seqxrefget.txt
  2305. share/EMBOSS/doc/programs/text/servertell.txt
  2306. share/EMBOSS/doc/programs/text/showserver.txt
  2307. share/EMBOSS/doc/programs/text/taxget.txt
  2308. share/EMBOSS/doc/programs/text/taxgetdown.txt
  2309. share/EMBOSS/doc/programs/text/taxgetrank.txt
  2310. share/EMBOSS/doc/programs/text/taxgetspecies.txt
  2311. share/EMBOSS/doc/programs/text/taxgetup.txt
  2312. share/EMBOSS/doc/programs/text/textget.txt
  2313. share/EMBOSS/doc/programs/text/urlget.txt
  2314. share/EMBOSS/doc/programs/text/variationget.txt
  2315. share/EMBOSS/doc/programs/text/wossdata.txt
  2316. share/EMBOSS/doc/programs/text/wossinput.txt
  2317. share/EMBOSS/doc/programs/text/wossoperation.txt
  2318. share/EMBOSS/doc/programs/text/wossoutput.txt
  2319. share/EMBOSS/doc/programs/text/wossparam.txt
  2320. share/EMBOSS/doc/programs/text/wosstopic.txt
  2321. share/EMBOSS/doc/programs/text/xmlget.txt
  2322. share/EMBOSS/doc/programs/text/xmltext.txt
  2323. @owner
  2324. @group
  2325. @mode
Collapse this list.
Dependency lines:
  • For RUN/BUILD depends:
    • emboss>0:biology/emboss
  • For LIB depends:
    • libacd.so:biology/emboss
    • libajax.so:biology/emboss
    • libajaxdb.so:biology/emboss
    • libajaxg.so:biology/emboss
    • libeexpat.so:biology/emboss
    • libensembl.so:biology/emboss
    • libepcre.so:biology/emboss
    • libeplplot.so:biology/emboss
    • libezlib.so:biology/emboss
    • libnucleus.so:biology/emboss
Conflicts:
CONFLICTS:
  • qmail-ldap-[0-9]*
  • digest-[0-9]*
Conflicts Matches:
There are no Conflicts Matches for this port. This is usually an error.
To install the port: cd /usr/ports/biology/emboss/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/emboss
  • pkg install emboss
PKGNAME: emboss
Flavors: there is no flavor information for this port.
distinfo:
Packages (timestamps in pop-ups are UTC):
emboss
ABIlatestquarterly
FreeBSD:11:aarch646.6.0_36.6.0_4
FreeBSD:11:amd646.6.0_66.6.0_4
FreeBSD:11:armv66.6.0_26.6.0_4
FreeBSD:11:i3866.6.0_66.6.0_4
FreeBSD:11:mips--
FreeBSD:11:mips646.6.0_2-
FreeBSD:12:aarch646.6.0_36.6.0_6
FreeBSD:12:amd646.6.0_66.6.0_6
FreeBSD:12:armv66.6.0_36.6.0_4
FreeBSD:12:armv76.6.0_36.6.0_4
FreeBSD:12:i3866.6.0_66.6.0_6
FreeBSD:12:mips--
FreeBSD:12:mips64--
FreeBSD:12:powerpc64-6.6.0_4
FreeBSD:13:aarch646.6.0_46.6.0_6
FreeBSD:13:amd646.6.0_66.6.0_6
FreeBSD:13:armv66.6.0_46.6.0_4
FreeBSD:13:armv76.6.0_46.6.0_4
FreeBSD:13:i3866.6.0_66.6.0_6
FreeBSD:13:mips--
FreeBSD:13:mips64--
FreeBSD:13:powerpc646.6.0_46.6.0_4
FreeBSD:14:aarch646.6.0_6-
FreeBSD:14:amd646.6.0_6-
FreeBSD:14:armv66.6.0_4-
FreeBSD:14:armv76.6.0_4-
FreeBSD:14:i3866.6.0_6-
FreeBSD:14:mips--
FreeBSD:14:mips64--
FreeBSD:14:powerpc646.6.0_4-
 

Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Build dependencies:
  1. clustalw : biology/clustalw
  2. primer3 : biology/primer3
  3. gmake>=4.3 : devel/gmake
  4. x11.pc : x11/libX11
  5. xpm.pc : x11/libXpm
Runtime dependencies:
  1. x11.pc : x11/libX11
  2. xpm.pc : x11/libXpm
Library dependencies:
  1. libgd.so : graphics/gd
  2. libpng.so : graphics/png
  3. libgd.so : graphics/gd
  4. libpng.so : graphics/png
  5. libmysqlclient.so.20 : databases/mysql57-client
  6. libpq.so.5 : databases/postgresql12-client
  7. libXm.so.4 : x11-toolkits/open-motif
This port is required by:
for Libraries

Deleted ports which required this port:

Expand this list of 1 deleted port
  1. biology/embassy*
  2. Collapse this list of deleted ports.
for Run
  1. biology/biostar-tools

Configuration Options:
Options name:

USES:

pkg-message:
If installing:
Master Sites:
Expand this list (1 items)
Collapse this list.
  1. ftp://emboss.open-bio.org/pub/EMBOSS/
Collapse this list.

Number of commits found: 97

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
24 Sep 2021 21:34:20
 files touched by this commit commit hash:c68b6dc6448c618b79c8d1800d25b789b1b01a90  6.6.0_6
jwb search for other commits by this committer
biology/emboss: Add "emboss" command in ${LOCALBASE}/bin

Standard emboss commands are installed under a special prefix because
of multiple conflicts.  The emboss command turns the standard commands
into subcommands, so no special PATH is needed.

    /usr/local/emboss/bin/needle [args]

can be run as

    emboss needle [args]
06 Sep 2021 15:13:03
 files touched by this commit commit hash:e47c577da6ce40e629041a92a327d9648ef72bd0  6.6.0_5
jwb search for other commits by this committer
biology/emboss: Put emboss-shell in default PATH

PREFIX is overridden by default in the port Makefile, so PREFIX/bin
is not normally in PATH.  The purpose of emboss-shell is to prepend
PREFIX/bin to PATH to give access to emboss tools.

Also fix tcsh detection.

PR:             258316
06 Sep 2021 14:21:44
 files touched by this commit commit hash:fa2e0b8c66d459b05b1a6624cd482950f9ea3376  6.6.0_5
jwb search for other commits by this committer
biology/emboss: Add emboss-shell: Run subshell with proper PATH

Also silence portlint and stage-qa warnings

PR:             258316
Approved by:    wen
06 Apr 2021 14:31:07
 files touched by this commit commit hash:305f148f482daf30dcf728039d03d019f88344eb  6.6.0_4
mat search for other commits by this committer
Remove # $FreeBSD$ from Makefiles.
04 May 2020 21:31:39
Original commit files touched by this commit Revision:533989  6.6.0_4
dinoex search for other commits by this committer
- update libgd to 2.3.0
- new option RAQM
- resurrect deprecated gdlib-config
- bump dependend ports
07 Nov 2019 20:20:00
Original commit files touched by this commit Revision:517008  6.6.0_3  Sanity Test Failure
zeising search for other commits by this committer
Sprinkle more USES=xorg
13 Aug 2019 16:00:39
Original commit files touched by this commit Revision:508834  6.6.0_3
mat search for other commits by this committer
Convert to UCL & cleanup pkg-message (categories a-c)
20 Jul 2016 09:33:32
Original commit files touched by this commit Revision:418829  6.6.0_3
dinoex search for other commits by this committer
- update libgd to 2.2.2
- new MASTER_SITES
- add security patch
PR:		210913
Submitted by:	Piotr Kubaj
MFH:		2016Q3
Security: CVE-2015-8874
Security: CVE-2016-3074
Security: http://www.openwall.com/lists/oss-security/2016/07/12/4
19 May 2016 11:09:14
Original commit files touched by this commit Revision:415503  6.6.0_2
amdmi3 search for other commits by this committer
- Fix trailing whitespace in pkg-messages

Approved by:	portmgr blanket
19 May 2016 10:21:25
Original commit files touched by this commit Revision:415498  6.6.0_2
amdmi3 search for other commits by this committer
- Fix trailing whitespace in pkg-descrs, categories [a-f]*

Approved by:	portmgr blanket
01 Apr 2016 13:29:17
Original commit files touched by this commit Revision:412344  6.6.0_2
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 Mar 2015 21:52:20
Original commit files touched by this commit Revision:381580  6.6.0_2
bapt search for other commits by this committer
Fix packaging as a user (pkg already takes care of credentials)
Strip binaries
25 Dec 2014 20:54:43
Original commit files touched by this commit Revision:375598  6.6.0_1
bapt search for other commits by this committer
Bump portrevision after png update
25 Dec 2014 19:04:27
Original commit files touched by this commit Revision:375594  6.6.0
antoine search for other commits by this committer
Change libpng15.so to libpng.so in LIB_DEPENDS to prepare the upgrade
20 Oct 2014 07:10:48
Original commit files touched by this commit Revision:371237  6.6.0
bapt search for other commits by this committer
Cleanup plist
09 Jun 2014 11:21:53
Original commit files touched by this commit Revision:357139  6.6.0
olgeni search for other commits by this committer
Remove indefinite articles and trailing periods from COMMENT, plus
minor COMMENT typos and surrounding whitespace fixes. Categories A-C.

CR:		D196
Approved by:	portmgr (bapt)
05 Jun 2014 03:28:07
Original commit files touched by this commit Revision:356575  6.6.0
miwi search for other commits by this committer
- Update to 6.6.0
- Stage support

PR:		190508
Submitted by:	Muhammad Moinur Rahman
05 May 2014 09:45:37
Original commit files touched by this commit Revision:352986  6.2.0_3
bapt search for other commits by this committer
Convert all :U to :tu and :L to :tl

Since FreeBSD 8.4 and FreeBSD 9.1 make(1) do support :tu and :tl as a
replacement for :U and :L (which has been marked as deprecated)

bmake which is the default on FreeBSD 10+ only support by default
:tu/:tl a hack has been added at the time to support :U and :L to ease
migration. This hack is now not necessary anymore

Note that this makes the ports tree incompatible with make(1) from
FreeBSD 8.3 or earlier

With hat:	portmgr
11 Dec 2013 14:43:51
Original commit files touched by this commit Revision:336171  6.2.0_3
bapt search for other commits by this committer
In preparation for making libtool generate libraries with a sane name, fix all
LIB_DEPENDS in biology
20 Sep 2013 15:55:44
Original commit files touched by this commit Revision:327709  6.2.0_3
bapt search for other commits by this committer
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology)
09 Aug 2013 14:05:53
Original commit files touched by this commit Revision:324437  6.2.0_3  Sanity Test Failure
dinoex search for other commits by this committer
- update libdg to 2.1.0
09 Jul 2013 21:49:36
Original commit files touched by this commit Revision:322587  6.2.0_2
bapt search for other commits by this committer
Convert from USE_MOTIF to USES=motif
While here:
- trim headers
- Remove indefinite article from comment
- convert USE_GMAKE to USES=gmake
01 Oct 2012 14:55:55
Original commit files touched by this commit Revision:305131  6.2.0_2
wen search for other commits by this committer
- Take maintainership
01 Oct 2012 14:45:17
Original commit files touched by this commit Revision:305130  6.2.0_2
tabthorpe search for other commits by this committer
- Reassign to the heap at maintainer's request
01 Jun 2012 05:26:28
Original commit files touched by this commit   6.2.0_2
dinoex search for other commits by this committer
- update png to 1.5.10
22 Oct 2011 23:50:23
Original commit files touched by this commit   6.2.0_1
eadler search for other commits by this committer
- remove maintainer tags from pkg-descr

Approved by:    portmgr
Approved by:    bapt (mentor)
02 Jul 2011 11:33:17
Original commit files touched by this commit   6.2.0_1
miwi search for other commits by this committer
- kick MD5
02 May 2011 12:44:53
Original commit files touched by this commit   6.2.0_1
makc search for other commits by this committer
Bump PORTREVISION after open-mofit update
04 Dec 2010 07:34:27
Original commit files touched by this commit   6.2.0
ade search for other commits by this committer
Sync to new bsd.autotools.mk
07 Apr 2010 01:16:50
Original commit files touched by this commit   6.2.0
wen search for other commits by this committer
- Update to 6.2.0

Submitted by:   Wen Heping(myself)
Approved by:    maintainer(via Email)
28 Mar 2010 06:47:48
Original commit files touched by this commit   6.0.1_3
dinoex search for other commits by this committer
- update to 1.4.1
Reviewed by:    exp8 run on pointyhat
Supported by:   miwi
05 Feb 2010 11:46:55
Original commit files touched by this commit   6.0.1_2
dinoex search for other commits by this committer
- update to jpeg-8
14 Aug 2009 08:33:22
Original commit files touched by this commit   6.0.1_1
miwi search for other commits by this committer
- Update MASTER_SITES

PR:             137750
Submitted by:   Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer)
02 Aug 2009 19:36:34
Original commit files touched by this commit   6.0.1_1
mezz search for other commits by this committer
-Repocopy devel/libtool15 -> libtool22 and libltdl15 -> libltdl22.
-Update libtool and libltdl to 2.2.6a.
-Remove devel/libtool15 and devel/libltdl15.
-Fix ports build with libtool22/libltdl22.
-Bump ports that depend on libltdl22 due to shared library version change.
-Explain what to do update in the UPDATING.

It has been tested with GNOME2, XFCE4, KDE3, KDE4 and other many wm/desktop
and applications in the runtime.

With help:      marcus and kwm
Pointyhat-exp:  a few times by pav
Tested by:      pgollucci, "Romain Tartière" <romain@blogreen.org>, and
                a few MarcusCom CVS users. Also, I might have missed a few.
Repocopy by:    marcus
Approved by:    portmgr
31 Jul 2009 13:57:52
Original commit files touched by this commit   6.0.1_1
dinoex search for other commits by this committer
- bump all port that indirectly depends on libjpeg and have not yet been bumped
or updated
Requested by:   edwin
14 Mar 2009 15:16:07
Original commit files touched by this commit   6.0.1
miwi search for other commits by this committer
- Force commit to correct the entry
- Update to 6.0.1

PR:             132504
Submitted by:   Wen Heping <wenheping@gmail.com>
Approved by:    maintainer
14 Mar 2009 15:14:45
Original commit files touched by this commit   6.0.1
miwi search for other commits by this committer
- Update to 0.1.24

PR:             132527
Submitted by:   Wen Heping <wenheping@gmail.com>
Approved by:    maintainer
17 Apr 2008 17:06:49
Original commit files touched by this commit   5.0.0
pav search for other commits by this committer
- Replace SF with second working master site

Submitted by:   Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer)
17 Apr 2008 01:31:23
Original commit files touched by this commit   5.0.0
rafan search for other commits by this committer
- It seems that upstream removes their distfiles from sourceforge, so add
  the download site pointed by their webpage as first choice.

Noticed by:    pointyhat via pav
13 Apr 2008 07:22:21
Original commit files touched by this commit   5.0.0
rafan search for other commits by this committer
- Update to 5.0.0

PR:             ports/122437
Submitted by:   Fernan Aguero <fernan at iib.unsam.edu.ar> (maintainer)
13 Apr 2008 07:21:16
Original commit files touched by this commit   3.0.0_2
rafan search for other commits by this committer
- Sort pkg-plist before updating to 5.0.0

PR:             ports/122437
Submitted by:   Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer)
23 Mar 2008 16:44:09
Original commit files touched by this commit   3.0.0_2
miwi search for other commits by this committer
- Remove USE_XLIB/USE_X_PREFIX/USE_XPM in favor of USE_XORG
- Bump PORTREVISION

Approved by:    portmgr (xorg cleanup)
19 May 2007 20:32:57
Original commit files touched by this commit   3.0.0_1
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}.
31 Mar 2006 09:43:22
Original commit files touched by this commit   3.0.0
thierry search for other commits by this committer
For EMBOSS:

        This patch brings EMBOSS up to date with the current version.

        i.   The patches included in files/ are bugfixes for files in
             EMBOSS-3.0.0 that appeared after the release. They are
             documented in ftp://emboss.open-bio.org/pub/EMBOSS/fixes/README

             This is just 'for the record' so that we remember to remove these
             patches in the next update.

        ii.  EMBOSS is now installed by default in LOCALBASE/emboss
             This is to avoid CONFLICTS with other ports that install files
             with the same names. Installing EMBOSS to another PREFIX is also
             possible.
(Only the first 15 lines of the commit message are shown above View all of this commit message)
23 Feb 2006 10:40:45
Original commit files touched by this commit   2.10.0_1
ade search for other commits by this committer
Conversion to a single libtool environment.

Approved by:    portmgr (kris)
02 Feb 2006 23:12:05
Original commit files touched by this commit   2.10.0
marcus search for other commits by this committer
Remove CONFLICTS with nss.
22 Jan 2006 08:20:34
Original commit files touched by this commit   2.10.0
edwin search for other commits by this committer
SHA256ify

Approved by:    krion@
15 Nov 2005 06:52:12
Original commit files touched by this commit   2.10.0
ade search for other commits by this committer
Mass-conversion to the USE_AUTOTOOLS New World Order.  The code present
in bsd.autotools.mk essentially makes this a no-op given that all the
old variables set a USE_AUTOTOOLS_COMPAT variable, which is parsed in
exactly the same way as USE_AUTOTOOLS itself.

Moreover, USE_AUTOTOOLS has already been extensively tested by the GNOME
team -- all GNOME 2.12.x ports use it.

Preliminary documentation can be found at:
        http://people.FreeBSD.org/~ade/autotools.txt

which is in the process of being SGMLized before introduction into the
Porters Handbook.

Light blue touch-paper.  Run.
29 May 2005 18:26:05
Original commit files touched by this commit   2.10.0
pav search for other commits by this committer
- Update to 2.10.0

PR:             ports/81579
Submitted by:   "Choe, Cheng-Dae" <whitekid@gmail.com>
Approved by:    Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer)
11 Feb 2005 21:11:51
Original commit files touched by this commit   2.9.0
sem search for other commits by this committer
- Add (or fix) CONFLICTS line. The ports install bin/digest.

Approved by:    portmgr (krion)
26 Nov 2004 01:11:43
Original commit files touched by this commit   2.9.0
sem search for other commits by this committer
- Update to 2.9.0
- Pass maintainership to submitter

PR:             ports/74333
Submitted by:   Fernan Aguero <fernan(at)iib.unsam.edu.ar>
26 Nov 2004 00:25:38
Original commit files touched by this commit   2.4.1_3
kris search for other commits by this committer
Add missing files
20 Nov 2004 07:40:43
Original commit files touched by this commit   2.4.1_3
linimon search for other commits by this committer
With portmgr hat on, reset inactive maintainer.
23 Jun 2004 08:20:21
Original commit files touched by this commit   2.4.1_3
vs search for other commits by this committer
Fix MASTER_SITES:
 - add trailing slash
 - ftp.ebi.ac.uk only has 2.8.0

PR:             ports/67427
Submitted by:   Roman Neuhauser
Approved by:    maintainer timeout
04 Feb 2004 05:21:48
Original commit files touched by this commit   2.4.1_3
marcus search for other commits by this committer
Bump PORTREVISION on all ports that depend on gettext to aid with upgrading.

(Part 2)
20 Nov 2003 15:06:15
Original commit files touched by this commit   2.4.1_2
trevor search for other commits by this committer
Define USE_PERL5_BUILD, not erroneous USE_PERL.

Submitted by:   Oliver Eikemeier
20 Nov 2003 13:51:47
Original commit files touched by this commit   2.4.1_2
trevor search for other commits by this committer
Define USE_PERL to make Perl available for (mostly deprecated)
"perl -pi -e" construction.
18 Aug 2003 16:15:11
Original commit files touched by this commit   2.4.1_2
nork search for other commits by this committer
o Main modification
  graphics/gd(based on 1.8.4)    -> graphics/gd1
  graphics/gd2(based on 2.0.15)  -> graphics/gd
  graphics/p5-GD(based on 1.41)  -> graphics/p5-GD1
  graphics/p5-GD2(based on 2.07) -> graphics/p5-GD
  japanese/gd                    -> japanese/gd1
  japanese/gd2                   -> japanese/gd
o Include some feature
  WITH_XPM(w/, w/o WITHOUT_X11)
o Chase this modification
o Fix build error [1]

PR:             ports/54540
Submitted by:   Ports Fury
Approved by:    maintainer (blanket)
Reported by:    bento via kris [1]
08 Aug 2003 04:40:47
Original commit files touched by this commit   2.4.1_1
kris search for other commits by this committer
This port is scheduled for removal on Nov 7 2003 if it is still broken at
that time and no PRs have been submitted to fix it.  If you are interested
in saving this port, please send your patches to the maintainer.  If the
maintainer is unresponsive or the port has no maintainer, then please
submit them via send-pr.
07 Aug 2003 09:29:17
Original commit files touched by this commit   2.4.1_1
kris search for other commits by this committer
BROKEN: Checksum mismatch
11 Jul 2003 18:16:14
Original commit files touched by this commit   2.4.1_1
nork search for other commits by this committer
o Change library name from libgd to libgd1.
o Do not install everything except headers and libraries
  (to avoid conflicting with graphics/gd2)
o Fix dependency on new libgd1(for many ports).

PR:             ports/54100
Submitted by:   Ports Fury
07 Mar 2003 05:56:43
Original commit files touched by this commit   2.4.1
ade search for other commits by this committer
Clear moonlight beckons.
Requiem mors pacem pkg-comment,
And be calm ports tree.

E Nomini Patri, E Fili, E Spiritu Sancti.
27 Sep 2002 08:58:19
Original commit files touched by this commit   2.4.1
wjv search for other commits by this committer
- Unbreak fetching of distfiles.  (Needs update as soon as freeze is over.)

Submitted by:   kris, bento
Approved by:    Implicitly by first rule of ports freeze, I hope!
20 Sep 2002 20:45:20
Original commit files touched by this commit   2.4.1
kris search for other commits by this committer
BROKEN: Does not fetch
05 Jul 2002 10:09:32
Original commit files touched by this commit   2.4.1
wjv search for other commits by this committer
- Update to version 2.4.1
- Unmark BROKEN
- Start adding support for Jemboss Java-based GUI (not active yet)

PR:             40198 ; many private requests
Submitted by:   Tilman Linneweh <tilman@arved.de> (2.4.1 update)
17 May 2002 09:24:32
Original commit files touched by this commit   2.2.0
kris search for other commits by this committer
BROKEN: incorrect checksums
25 Mar 2002 09:19:21
Original commit files touched by this commit   2.2.0
sobomax search for other commits by this committer
Add USE_SUBMAKE, where it might be necessary.
18 Jan 2002 14:04:04
 files touched by this commit commit hash:fp1.23505@dev.null.freshports.org
wjv search for other commits by this committer
- Update to version 2.2.0   - Update included EMBASSY package EMNU   - Fix a
long-standing bug in Makefile that would preclude PKGMESSAGE from     being
generated properly   - Consider this an interim update merely to track the
latest version - more     work is required to activate the newly included
"Jemboss" Java GUI     interface    
03 Aug 2001 12:32:42
 files touched by this commit commit hash:fp1.16780@dev.null.freshports.org
wjv search for other commits by this committer
- Update port to version 2.0.1   - Add two new EMBASSY applications, MEME and
HMMER.    
11 Jul 2001 14:58:12
 files touched by this commit commit hash:fp1.16089@dev.null.freshports.org
wjv search for other commits by this committer
Remove obsolete pointer to online documentation.    
11 Jul 2001 14:33:34
 files touched by this commit commit hash:fp1.16088@dev.null.freshports.org
wjv search for other commits by this committer
Update package's URL; my email address.    
27 Jun 2001 11:15:02
 files touched by this commit commit hash:fp1.15557@dev.null.freshports.org
wjv search for other commits by this committer
Updating my email address in my remaining ports.    
15 Jun 2001 13:11:33
 files touched by this commit commit hash:fp1.15092@dev.null.freshports.org
wjv search for other commits by this committer
Update to 1.13.3; remove bogus file.    
30 May 2001 15:34:57
 files touched by this commit commit hash:fp1.14407@dev.null.freshports.org
kevlo search for other commits by this committer
Update to version 1.13.1    
07 May 2001 13:18:58
 files touched by this commit commit hash:fp1.13506@dev.null.freshports.org
jeh search for other commits by this committer
Update the EMBOSS suite (biology/emboss) to version 1.12.0    
12 Mar 2001 10:33:50
 files touched by this commit commit hash:fp1.10874@dev.null.freshports.org
nbm search for other commits by this committer
Update the EMBOSS suite to v1.11.0    
28 Feb 2001 15:58:11
 files touched by this commit commit hash:fp1.10136@dev.null.freshports.org
kevlo search for other commits by this committer
Update to version 1.10.1    
20 Feb 2001 15:51:34
 files touched by this commit commit hash:fp1.9769@dev.null.freshports.org
kevlo search for other commits by this committer
Update to version 1.10.0    
12 Feb 2001 10:01:08
 files touched by this commit commit hash:fp1.9502@dev.null.freshports.org
knu search for other commits by this committer
Chase graphics/gd's shlib version bump.    
29 Jan 2001 15:48:01
 files touched by this commit commit hash:fp1.9022@dev.null.freshports.org
kevlo search for other commits by this committer
- Update EMBOSS (biology/emboss) from 1.9.0 to 1.9.1   - Update the EMBASSY
package EMNU from 1.0.2 to 1.0.3   - Merged the four pkg-plist* files into one  
 
24 Jan 2001 11:36:38
 files touched by this commit commit hash:fp1.8806@dev.null.freshports.org
kevlo search for other commits by this committer
Upgrade to version 1.9.0    
04 Dec 2000 13:00:08
 files touched by this commit commit hash:fp1.6940@dev.null.freshports.org
roam search for other commits by this committer
Update distfiles' checksums after the distfiles have been rerolled yet   again
without changing names or versions.  Also add a new MASTER_SITE.    
30 Nov 2000 20:13:30
 files touched by this commit commit hash:fp1.6853@dev.null.freshports.org
roam search for other commits by this committer
Distfile tarballs were rerolled without notice due to a minor bug.    
28 Nov 2000 01:43:40
 files touched by this commit commit hash:fp1.6760@dev.null.freshports.org
jeh search for other commits by this committer
- Update port biology/emboss from 1.7.0 to 1.8.0    
19 Nov 2000 03:06:48
 files touched by this commit commit hash:fp1.6530@dev.null.freshports.org
jeh search for other commits by this committer
Make nolonger support :U.  Fix to compensate for that.    
13 Nov 2000 13:49:46
 files touched by this commit commit hash:fp1.6366@dev.null.freshports.org
jeh search for other commits by this committer
- This is a fairly extensive rework of this port.   - "EMBASSY" applications are
third party tools which have been adapted to     function as part of EMBOSS, but
which are not included with the base EMBOSS     distribution for licensing or
other reasons.  This new version of the     EMBOSS port now contains the three
current EMBASSY applications as well,     and during installation the user is
presented with a dialog(1) menu to    
13 Nov 2000 13:48:50
 files touched by this commit commit hash:fp1.6370@dev.null.freshports.org
jeh search for other commits by this committer
- This is a fairly extensive rework of this port.   - "EMBASSY" applications are
third party tools which have been adapted to     function as part of EMBOSS, but
which are not included with the base EMBOSS     distribution for licensing or
other reasons.  This new version of the     EMBOSS port now contains the three
current EMBASSY applications as well,     and during installation the user is
presented with a dialog(1) menu to     choose which of these should be
isntalled.    
01 Nov 2000 11:54:56
 files touched by this commit commit hash:fp1.5796@dev.null.freshports.org
jeh search for other commits by this committer
Make portlint happy, remove a space    
01 Nov 2000 11:49:08
 files touched by this commit commit hash:fp1.5803@dev.null.freshports.org
jeh search for other commits by this committer
Update to version 1.7.0    
10 Oct 2000 05:54:36
 files touched by this commit commit hash:fp1.4929@dev.null.freshports.org
kevlo search for other commits by this committer
- Update to 1.6.0   - Reorder packing list    
08 Oct 2000 00:23:30
 files touched by this commit commit hash:fp1.4706@dev.null.freshports.org
asami search for other commits by this committer
Convert category biology to new layout.  
22 Sep 2000 11:24:52
 files touched by this commit commit hash:fp1.4224@dev.null.freshports.org
kris search for other commits by this committer
Add USE_XLIB    
08 Sep 2000 11:07:13
 files touched by this commit commit hash:fp1.3678@dev.null.freshports.org
nbm search for other commits by this committer
Upgrade to 1.5.0    
07 Sep 2000 15:02:53
 files touched by this commit commit hash:fp1.3643@dev.null.freshports.org
nbm search for other commits by this committer
Update to emboss 1.4.0.    
21 Aug 2000 11:07:37
 files touched by this commit commit hash:fp1.3099@dev.null.freshports.org
sobomax search for other commits by this committer
USE_LIBTOOL implies GNU_CONFIGURE, so remove redundant GNU_CONFIGURE lines.    
12 Aug 2000 17:15:48
 files touched by this commit commit hash:fp1.2865@dev.null.freshports.org
nbm search for other commits by this committer
Update to emboss 1.1.0, fixing some style bugs too.    
31 Jul 2000 20:13:54
 files touched by this commit commit hash:fp1.2474@dev.null.freshports.org
nbm search for other commits by this committer
Add emboss, the European Molecular Biology Open Software Suite    

Number of commits found: 97