jabaws/testsrc/compbio

runner

Clone Tools

Stats

Commits this week: 0
Total Committers: 5
Last Commit:
Commits this week: 0

Lines of code count not available

Commit Activity

Commits By Day In Week
52 week commits volume
Commits By Day In Week
Commits by day
Commits By Day In Week
Commits by hour
Commits By Hour In Day
Commit calendar
 

Most active committers (90 days)

loading
loading
  • last updated a few seconds ago
All Commits Reviews
Constraints
Constraints: committers
 
Constraints: files
Constraints: dates
Tuesday 28 Feb 2017
12:21 pm

Fábio Madeira

JWS-113 Commented Jpred entries in the datamodel, runner and webservices java source code.

Options
    • -1
    • +1
    ./msa/TcoffeeTester.java
    • -344
    • +344
    ./predictors/JpredTester.java
  3. … 13 more files in changeset.
Thursday 26 Sep 2013
2:30 pm

Sasha Sherstnev <a.sherstnev@dundee.ac.uk>

Refactoring (renaming) 2 classes: AsyncJobRunner.java -> AsyncClusterRunner.java and JobRunner.java -> ClusterRunner.java

Options
    • -2
    • +2
    ./conservation/AAConTester.java
    • -2
    • +2
    ./disorder/DisemblTester.java
    • -2
    • +2
    ./disorder/GlobPlotTester.java
    • -2
    • +2
    ./disorder/IUPredTester.java
    • -2
    • +2
    ./disorder/JronnTester.java
    • -2
    • +2
    ./msa/ClustalOTester.java
    • -2
    • +2
    ./msa/ClustalWTester.java
    • -2
    • +2
    ./msa/MafftTester.java
    • -2
    • +2
    ./msa/MuscleTester.java
    • -2
    • +2
    ./msa/ProbconsTester.java
    • -2
    • +2
    ./msa/TcoffeeTester.java
    • -2
    • +2
    ./predictors/JpredTester.java
    • -1
    • +1
    ./structure/RNAalifoldTester.java
  14. … 14 more files in changeset.
Friday 20 Sep 2013
3:32 pm

Sasha Sherstnev <a.sherstnev@dundee.ac.uk>

Refactoring: rename duplicated Util classes

Options
    • -4
    • +4
    ./conservation/AAConTester.java
    • -2
    • +2
    ./disorder/DisemblTester.java
    • -2
    • +2
    ./disorder/GlobPlotTester.java
    • -2
    • +2
    ./disorder/IUPredTester.java
    • -2
    • +2
    ./disorder/JronnTester.java
    • -5
    • +5
    ./msa/ClustalOTester.java
    • -4
    • +4
    ./msa/ClustalWTester.java
    • -1
    • +1
    ./msa/MafftTester.java
    • -2
    • +2
    ./msa/MuscleTester.java
    • -1
    • +1
    ./msa/ProbconsTester.java
    • -2
    • +2
    ./msa/TcoffeeParametersTester.java
    • -6
    • +6
    ./predictors/JpredTester.java
    • -1
    • +1
    ./structure/RNAalifoldTester.java
  14. … 50 more files in changeset.
Friday 06 Sep 2013
3:29 pm

Sasha Sherstnev <a.sherstnev@dundee.ac.uk>

Switch JpredWS from SequenceAnnotation to MsaWS

Options
    • -13
    • +13
    ./predictors/JpredTester.java
  2. … 6 more files in changeset.
Wednesday 21 Aug 2013
11:49 am

Daniel Barton

RNAStruct replaced by RNAStructScoreManager. Why does webservice getAnnotation method still return a ScoreManager Not an RNAStructScoreManager?!?

Options
    • -447
    • +448
    ./structure/RNAalifoldParametersTester.java
    • -118
    • +119
    ./structure/RNAalifoldTester.java
  3. … 6 more files in changeset.
Thursday 15 Aug 2013
6:13 pm

Daniel Barton

Alifold results are now parsed and stored in a ScoreManager object

Options
    • -7
    • +9
    ./structure/RNAalifoldParametersTester.java
    • -2
    • +11
    ./structure/RNAalifoldTester.java
  3. … 13 more files in changeset.
Monday 12 Aug 2013
3:24 pm

Daniel Barton

Webservice which implements FoldWS and returns String. Parameters.xml file updated in line with the RunnerConfig schema.

Options
    • -32
    • +231
    ./structure/RNAalifoldParametersTester.java
  2. … 13 more files in changeset.
Friday 09 Aug 2013
10:15 am

Sasha Sherstnev <a.sherstnev@dundee.ac.uk>

Fix problem with unknown global constants

Options
    • -2
    • +3
    ./msa/TcoffeeParametersTester.java
Thursday 08 Aug 2013
2:12 pm

Sasha Sherstnev <a.sherstnev@dundee.ac.uk>

1st working Jpred tester

Options
    • -15
    • +14
    ./predictors/JpredTester.java
2:12 pm

Sasha Sherstnev <a.sherstnev@dundee.ac.uk>

Check and correct several runner testers

Options
    • -91
    • +56
    ./conservation/AAConTester.java
    • -69
    • +37
    ./disorder/JronnTester.java
    • -152
    • +112
    ./msa/ClustalOTester.java
    • -128
    • +92
    ./msa/ClustalWTester.java
    • -82
    • +78
    ./msa/TcoffeeTester.java
Wednesday 07 Aug 2013
5:28 pm

Sasha Sherstnev <a.sherstnev@dundee.ac.uk>

Necessary modifications in JABAWS for Jpred

Options
    • -0
    • +363
    ./predictors/JpredTester.java
  2. … 3 more files in changeset.
Monday 05 Aug 2013
5:51 pm

Daniel Barton

Simple datamodel for RNAalifold.exe output and method to convert from fasta to clustal format and write clustal input files.

Options
    • -1
    • +1
    ./structure/RNAalifoldTester.java
  2. … 8 more files in changeset.
Sunday 04 Aug 2013
10:05 pm

Daniel Barton

Parameters Tester updated. Untested webservice code. generate xsd/wsdl?

Options
    • -0
    • +44
    ./structure/RNAalifoldParametersTester.java
    • -2
    • +1
    ./structure/RNAalifoldTester.java
  3. … 3 more files in changeset.
Saturday 03 Aug 2013
12:18 pm

Daniel Barton

Basic Testing Setup, no getResults method yet

Options
    • -0
    • +202
    ./structure/RNAalifoldParametersTester.java
    • -3
    • +39
    ./structure/RNAalifoldTester.java
  3. … 7 more files in changeset.
Thursday 01 Aug 2013
5:29 pm

Daniel Barton

RNAalifold.java runner and RNAalifoldTester incomplete

Options
    • -0
    • +74
    ./structure/RNAalifoldTester.java
  2. … 5 more files in changeset.
Tuesday 15 May 2012
4:55 pm

jprocter <jprocter@compbio.dundee.ac.uk>

remove jabaws 3 development code

Options
    • -101
    • +0
    ./_impl/MclTester.java
    • -94
    • +0
    ./_impl/NetNglycTester.java
    • -113
    • +0
    ./_impl/OBTester.java
    • -105
    • +0
    ./_impl/RonnTester.java
    • -100
    • +0
    ./_impl/Tmhmm2Tester.java
  6. … 40 more files in changeset.
Thursday 04 Aug 2011
2:17 pm

pvtroshin <pvtroshin@e3abac25-378b-4346-85de-24260fe3988d>

Clustal Omega web service wrapper and tester

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@4464 e3abac25-378b-4346-85de-24260fe3988d

Options
    • -89
    • +36
    ./msa/ClustalOTester.java
  2. … 1 more file in changeset.
Wednesday 03 Aug 2011
6:06 pm

pvtroshin <pvtroshin@e3abac25-378b-4346-85de-24260fe3988d>

Wrapper for Clustal Omega.

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@4458 e3abac25-378b-4346-85de-24260fe3988d

Options
    • -0
    • +472
    ./msa/ClustalOTester.java
  2. … 182 more files in changeset.
Monday 27 Jun 2011
2:48 pm

pvtroshin <pvtroshin@e3abac25-378b-4346-85de-24260fe3988d>

Build script improvements & updated util

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@4337 e3abac25-378b-4346-85de-24260fe3988d

Options
    • -109
    • +0
    ./_impl/RPSBlastTester.java
  2. … 6 more files in changeset.
Wednesday 22 Jun 2011
6:26 pm

pvtroshin <pvtroshin@e3abac25-378b-4346-85de-24260fe3988d>

annotate test with appropriate groups

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@4308 e3abac25-378b-4346-85de-24260fe3988d

Options
    • -8
    • +10
    ./conservation/AAConTester.java
Thursday 16 Jun 2011
3:30 pm

pvtroshin <pvtroshin@e3abac25-378b-4346-85de-24260fe3988d>

A few more tests for IUPred

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@4275 e3abac25-378b-4346-85de-24260fe3988d

Options
    • -7
    • +13
    ./disorder/IUPredTester.java
3:22 pm

pvtroshin <pvtroshin@e3abac25-378b-4346-85de-24260fe3988d>

IUPred final touches. All test cases pass

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@4274 e3abac25-378b-4346-85de-24260fe3988d

Options
    • -28
    • +95
    ./disorder/IUPredTester.java
  2. … 11 more files in changeset.
Tuesday 14 Jun 2011
6:12 pm

pvtroshin <pvtroshin@e3abac25-378b-4346-85de-24260fe3988d>

IUPred wrapper, tester and new binary for X64 linux systems

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@4265 e3abac25-378b-4346-85de-24260fe3988d

Options
    • -0
    • +310
    ./disorder/IUPredTester.java
  2. … 4 more files in changeset.
Thursday 10 Feb 2011
12:05 pm

pvtroshin <pvtroshin@e3abac25-378b-4346-85de-24260fe3988d>

Fixes to test cases

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3734 e3abac25-378b-4346-85de-24260fe3988d

Options
    • -6
    • +7
    ./conservation/AAConTester.java
    • -2
    • +3
    ./disorder/DisemblTester.java
    • -2
    • +3
    ./disorder/GlobPlotTester.java
    • -4
    • +5
    ./disorder/JronnTester.java
  5. … 1 more file in changeset.
Wednesday 09 Feb 2011
11:10 am

pvtroshin <pvtroshin@e3abac25-378b-4346-85de-24260fe3988d>

Fix a test case for jronn parameters

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3724 e3abac25-378b-4346-85de-24260fe3988d

Options
    • -2
    • +2
    ./disorder/JronnTester.java
10:42 am

pvtroshin <pvtroshin@e3abac25-378b-4346-85de-24260fe3988d>

GlobPlot and DIsembl execs all test passed

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3722 e3abac25-378b-4346-85de-24260fe3988d

Options
    • -2
    • +5
    ./disorder/DisemblTester.java
    • -5
    • +4
    ./disorder/GlobPlotTester.java
  3. … 6 more files in changeset.
Monday 07 Feb 2011
3:06 pm

pvtroshin <pvtroshin@e3abac25-378b-4346-85de-24260fe3988d>

GlobPlot service, runner and result parser Some rearrangements for disembl to reuse methods

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3709 e3abac25-378b-4346-85de-24260fe3988d

Options
    • -0
    • +312
    ./disorder/GlobPlotTester.java
  2. … 11 more files in changeset.
Thursday 03 Feb 2011
5:17 pm

pvtroshin <pvtroshin@e3abac25-378b-4346-85de-24260fe3988d>

Parser for DisEMBL results and finished runner, few test cases. DisemblTester has all tests "green"

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3695 e3abac25-378b-4346-85de-24260fe3988d

Options
    • -50
    • +9
    ./disorder/DisemblTester.java
  2. … 10 more files in changeset.
10:13 am

pvtroshin <pvtroshin@e3abac25-378b-4346-85de-24260fe3988d>

Disembl further implementation

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3663 e3abac25-378b-4346-85de-24260fe3988d

Options
    • -1
    • +1
    ./conservation/AAConTester.java
  2. … 5 more files in changeset.
Wednesday 02 Feb 2011
4:30 pm

pvtroshin <pvtroshin@e3abac25-378b-4346-85de-24260fe3988d>

Remove Annotated and MuptiAnnotated Sequence use Score instead

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3660 e3abac25-378b-4346-85de-24260fe3988d

Options
    • -8
    • +8
    ./conservation/AAConTester.java
    • -254
    • +256
    ./disorder/DisemblTester.java
    • -43
    • +43
    ./disorder/JronnTester.java
  4. … 13 more files in changeset.