Difference between revisions of "Deprecation"

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* metamos - 1.3.1
 
* metamos - 1.3.1
 
* miso - 0.4.4, 0.4.9
 
* miso - 0.4.4, 0.4.9
*  
+
* modeller - 9.11, 9.13
 +
* msmbuilder - 2.5.1
 +
* nexuscl - 2.1.18
 +
* ngsutils - 20130722, 20150206
 +
* partitionfinder - 1.0.1, 2.0.0-pre8, 2.0.0-pre10, 2.0.0-pre11
 +
* phycas - 1.2.0
 +
* scons - 2.3.0
 +
* spades - 2.5.0, 2.5.1 - More will be removed in the future some are loaded as dependencies
 +
* spanki - 0.4.1, 0.4.3, 0.5.0
 +
* sparcc - 201402
 +
* spimap - 1.1, .1.1.git20120501
 +
* treefix -  1.1.10, 1.1.7
 +
* vcflib - 20121207, 20141119
 +
* velvet - 1.2.06, 1.2.07
 +
* wgs - 7.0.1.23-pacbio, 7.0.1.23, 8.0.r4443-pacbio, 8.0.r4443
  
 
;2020-03-01:
 
;2020-03-01:

Revision as of 19:06, 26 March 2020

Apps and Databases to Remove

A list of software and the databases that are going to be deprecated. The modules are removed and the software is put into the REMOVE directories to be removed 6 months from being added to this page.

2020-04-01
  • tophat - 2.0.8b, 2.0.1, 2.0.13, 2.0.11, 1.4.1, 1.3.3b, 1.3.0
  • MATS - 3.0.4.beta, 3.0.6.beta, 3.0.8
  • afni - 2011_12_21_1014, 2013_05_31, 2013_11_24-openmp
  • agalma - 0.2.1
  • amuse - 6.0
  • arc - 20130715
  • bayesrate - 1.3.43
  • beta - 1.0.5
  • cgat - 0.2.3
  • cufflinks - 1.3.0, 2.0.0, 2.0.2
  • htseq - 0.5.3p3, 0.6.1p1
  • libsvm - 3.12
  • lsc - 0.3.1, 0.3, 1alpha, 1beta, 2.0
  • metamos - 1.3.1
  • miso - 0.4.4, 0.4.9
  • modeller - 9.11, 9.13
  • msmbuilder - 2.5.1
  • nexuscl - 2.1.18
  • ngsutils - 20130722, 20150206
  • partitionfinder - 1.0.1, 2.0.0-pre8, 2.0.0-pre10, 2.0.0-pre11
  • phycas - 1.2.0
  • scons - 2.3.0
  • spades - 2.5.0, 2.5.1 - More will be removed in the future some are loaded as dependencies
  • spanki - 0.4.1, 0.4.3, 0.5.0
  • sparcc - 201402
  • spimap - 1.1, .1.1.git20120501
  • treefix - 1.1.10, 1.1.7
  • vcflib - 20121207, 20141119
  • velvet - 1.2.06, 1.2.07
  • wgs - 7.0.1.23-pacbio, 7.0.1.23, 8.0.r4443-pacbio, 8.0.r4443
2020-03-01
  • homer - 20130529, 4.5, 4.6, 4.7, databases
  • fgenesb - 2012, databases
  • picrust - 1.0.0-gx
  • qiime - 1.5.0, 1.6.0, 1.8.0, 1.9.0
  • iprscan - 4.8, 5.0rc6, 5.19-58.0, 5.24-63.0, 5.25-64.0, 5.26-65.0, 5.29-68.0.bak, database