agmial Developers: vloux

Login name:
vloux
Total Commits:
2983 (69.4%)
Lines of Code:
133260 (66.9%)
Most Recent Commit:
2008-03-04 10:23

Activity by Clock Time

Activity by Hour of Day for vloux

Activity by Day of Week for vloux

Activity in Directories

Directory Changes Lines of Code Lines per Change
Totals 2983 (100.0%) 133260 (100.0%) 44.6
BioTools/test_input/ 21 (0.7%) 21806 (16.4%) 1038.3
BioTools/src/biotools/calc/ 316 (10.6%) 9637 (7.2%) 30.4
Agmial2/pa_manager/src/pam/reader/ 190 (6.4%) 8520 (6.4%) 44.8
BioTools/src/biotools/nucleic/ 125 (4.2%) 8145 (6.1%) 65.1
Agmial2/pa_manager/web/js/ 4 (0.1%) 8109 (6.1%) 2027.2
BioTools/src/biotools/util/ 62 (2.1%) 7621 (5.7%) 122.9
doc/ 9 (0.3%) 7592 (5.7%) 843.5
Agmial2/pa_manager/src/pam/protdb/ 148 (5.0%) 7461 (5.6%) 50.4
Agmial2/ca_manager/src/cam/contigdb/ 107 (3.6%) 6552 (4.9%) 61.2
Agmial2/ca_manager/src/cam/reader/ 107 (3.6%) 6228 (4.7%) 58.2
BioTools/src/biotools/protein/ 122 (4.1%) 5673 (4.3%) 46.5
Agmial2/ca_manager/src/cam/admin/ 110 (3.7%) 3211 (2.4%) 29.1
Agmial2/pa_manager/src/pam/admin/ 87 (2.9%) 2619 (2.0%) 30.1
Agmial2/pa_manager/src/pam/view/ 18 (0.6%) 2206 (1.7%) 122.5
Agmial2/ca_manager/web/ 61 (2.0%) 2057 (1.5%) 33.7
Agmial2/artemis_client/ARTEMIS/lib/ 58 (1.9%) 1859 (1.4%) 32.0
Agmial2/ca_manager/src/cam/control/ 114 (3.8%) 1845 (1.4%) 16.1
BioTools/src/test/biotools/nucleic/ 19 (0.6%) 1759 (1.3%) 92.5
Agmial2/pa_manager/src/pam/controler/ 11 (0.4%) 1650 (1.2%) 150.0
Agmial2/pa_manager/src/pam/control/ 78 (2.6%) 1487 (1.1%) 19.0
Agmial2/pa_manager/src/pam/modele/ 14 (0.5%) 1461 (1.1%) 104.3
Agmial2/pa_manager/src/pam/database/ 6 (0.2%) 1283 (1.0%) 213.8
Agmial2/pa_manager/web/js/src/lfx/ 5 (0.2%) 1199 (0.9%) 239.8
BioTools/src/test/biotools/calc/ 24 (0.8%) 1132 (0.8%) 47.1
Agmial2/pa_manager/web/ 51 (1.7%) 1099 (0.8%) 21.5
Agmial2/pa_manager/src/pam/searchServlet/ 7 (0.2%) 809 (0.6%) 115.5
Agmial2/pa_manager/web/js/src/ 1 (0.0%) 761 (0.6%) 761.0
Agmial2/pa_manager/web/js/src/fx/ 3 (0.1%) 687 (0.5%) 229.0
BioTools/src/biotools/general/ 12 (0.4%) 657 (0.5%) 54.7
Agmial2/pa_manager/web/js/src/widget/html/ 1 (0.0%) 582 (0.4%) 582.0
Agmial2/pa_manager/sql/ 11 (0.4%) 566 (0.4%) 51.4
Agmial2/artemis_client/src/agmial/artemis/ 36 (1.2%) 552 (0.4%) 15.3
Agmial2/pa_manager/ 29 (1.0%) 515 (0.4%) 17.7
Agmial2/ 39 (1.3%) 456 (0.3%) 11.6
Agmial2/pa_manager/sql/script_bd/ 16 (0.5%) 444 (0.3%) 27.7
Agmial2/ca_manager/ 26 (0.9%) 428 (0.3%) 16.4
Agmial2/agmial_directory/web/ 24 (0.8%) 425 (0.3%) 17.7
/ 5 (0.2%) 340 (0.3%) 68.0
Agmial2/artemis_client/src_wsdl/ 11 (0.4%) 330 (0.2%) 30.0
Agmial2/agmial_directory/src/agmial/directory/ 9 (0.3%) 289 (0.2%) 32.1
BioTools/src/test/biotools/protein/ 8 (0.3%) 281 (0.2%) 35.1
BioTools/src/test/biotools/general/ 3 (0.1%) 271 (0.2%) 90.3
BioTools/scripts/ 1 (0.0%) 267 (0.2%) 267.0
BioTools/ 19 (0.6%) 257 (0.2%) 13.5
Agmial2/pa_manager/web/reader/ 17 (0.6%) 254 (0.2%) 14.9
SQL_Tools/ 1 (0.0%) 220 (0.2%) 220.0
Agmial2/agmial_directory/ 8 (0.3%) 215 (0.2%) 26.8
BioTools/src/test/biotools/ 5 (0.2%) 146 (0.1%) 29.2
Agmial2/ca_manager/sql/ 6 (0.2%) 141 (0.1%) 23.5
Agmial2/common/src/agmial/control/ 10 (0.3%) 130 (0.1%) 13.0
Agmial2/common/src/agmial/util/ 8 (0.3%) 111 (0.1%) 13.8
Agmial2/agmial_directory/web/jsp/ 4 (0.1%) 100 (0.1%) 25.0
Agmial2/artemis_client/ARTEMIS/diana/components/ 173 (5.8%) 96 (0.1%) 0.5
Agmial2/common/src/agmial/registry/ 3 (0.1%) 92 (0.1%) 30.6
Agmial2/common/ 5 (0.2%) 75 (0.1%) 15.0
Agmial2/ca_manager/src/cam/lifecycle/ 14 (0.5%) 69 (0.1%) 4.9
Agmial2/pa_manager/src_wsdl/ 8 (0.3%) 64 (0.0%) 8.0
Agmial2/pa_manager/web/js/src/widget/ 2 (0.1%) 61 (0.0%) 30.5
Agmial2/pa_manager/src/pam/lifecycle/ 8 (0.3%) 61 (0.0%) 7.6
BioTools/.settings/ 1 (0.0%) 47 (0.0%) 47.0
Agmial2/ca_manager/src_wsdl/ 4 (0.1%) 46 (0.0%) 11.5
Agmial2/ca_manager/web/jsp/ 1 (0.0%) 45 (0.0%) 45.0
Agmial2/artemis_client/ 25 (0.8%) 40 (0.0%) 1.6
BioTools/src/biotools/ 1 (0.0%) 33 (0.0%) 33.0
Agmial2/pa_manager/src/pam/util/ 3 (0.1%) 26 (0.0%) 8.6
Agmial2/ca_manager/src/cam/util/ 3 (0.1%) 26 (0.0%) 8.6
Agmial2/artemis_client/ARTEMIS/ 30 (1.0%) 13 (0.0%) 0.4
Agmial2/artemis_client/ARTEMIS/etc/ 6 (0.2%) 12 (0.0%) 2.0
Agmial2/artemis_client/ARTEMIS/diana/ 97 (3.3%) 5 (0.0%) 0.0
Agmial2/artemis_client/ARTEMIS/META-INF/ 2 (0.1%) 2 (0.0%) 1.0
Agmial2/agmial_directory/web/agmial_user_guide/ 1 (0.0%) 2 (0.0%) 2.0
BioTools/libs/ 1 (0.0%) 0 (0.0%) 0.0
Agmial2/pa_manager/web/lib/ 2 (0.1%) 0 (0.0%) 0.0
Agmial2/pa_manager/web/jsp/ 2 (0.1%) 0 (0.0%) 0.0
Agmial2/pa_manager/web/images/ 6 (0.2%) 0 (0.0%) 0.0
Agmial2/ca_manager/web/images/ 3 (0.1%) 0 (0.0%) 0.0
Agmial2/ca_manager/web/applets/ 1 (0.0%) 0 (0.0%) 0.0
Agmial2/artemis_client/src/ 2 (0.1%) 0 (0.0%) 0.0
Agmial2/artemis_client/ARTEMIS/uk/ac/sanger/pathogens/embl/ 170 (5.7%) 0 (0.0%) 0.0
Agmial2/artemis_client/ARTEMIS/uk/ac/sanger/pathogens/ 22 (0.7%) 0 (0.0%) 0.0
Agmial2/artemis_client/ARTEMIS/jalview/ 3 (0.1%) 0 (0.0%) 0.0
Agmial2/artemis_client/ARTEMIS/docs/ 43 (1.4%) 0 (0.0%) 0.0
Agmial2/artemis_client/ARTEMIS/diana/sequence/ 27 (0.9%) 0 (0.0%) 0.0
Agmial2/artemis_client/ARTEMIS/diana/plot/ 38 (1.3%) 0 (0.0%) 0.0
Agmial2/artemis_client/ARTEMIS/corba/ 6 (0.2%) 0 (0.0%) 0.0
Agmial2/artemis_client/ARTEMIS/collections/ 78 (2.6%) 0 (0.0%) 0.0
Agmial2/agmial_directory/web/images/ 5 (0.2%) 0 (0.0%) 0.0

Activity of vloux

Most Recent Commits

vloux 2008-03-04 10:23

Multiple EC in external tools bugfix

10 lines of code changed in:

  • Agmial2/pa_manager/src/pam/reader: ExternalTools.java (+10 -1)
vloux 2008-03-04 10:21

EasyQB bugfix

6 lines of code changed in:

  • Agmial2/pa_manager/src/pam/controler: ListSearchParameter.java (+5 -3)
  • Agmial2/pa_manager/src/pam/searchServlet: InnerSearchServlet.java (+1 -1)
vloux 2008-02-22 18:21

Fixed parsing bug in Interpro results

27 lines of code changed in:

  • BioTools/src/biotools/calc: INTERPROText.java (+27 -12)
vloux 2007-12-10 10:36

ParalogyResults : jnpe correction.

43 lines of code changed in:

  • Agmial2/pa_manager/src/pam/admin: UpdateAnnotation.java (+28 -5)
  • Agmial2/pa_manager/src/pam/protdb: PAMHomologyResultSchema.java (+1 -1), ProteinDB.java (+11 -4)
  • Agmial2/pa_manager/src/pam/reader: HomologyPanel.java (+1 -1), ParalogyTable.java (+2 -1)
vloux 2007-10-24 11:47

CAM Model modifications for homology storage.
Added CAM_HOMOLOGY_RESULT

101 lines of code changed in:

  • Agmial2/ca_manager/sql: contigdb_creation.sql (+101 -2)
vloux 2007-10-24 11:42

ExtractORFAction :
for each CDS take the surrounding ORF and put it in a specific layer.
OrfAlign : similarity search on ORFs created by ExtractOrfAction

809 lines of code changed in:

  • Agmial2/ca_manager/src/cam/contigdb: CAMFeatureAction.java (+3), CAMFeatureSchema.java (+2 -2), CAMHomologyResult.java (new 110), CAMHomologyResultSchema.java (new 169), ContigDB.java (+161 -21)
  • Agmial2/ca_manager/src/cam/control: CAMControl.java (+34 -4), ExtractOrfAction.java (new 105), FeatureCalcAction.java (new 218), UpdateCDSAction.java (+2 -1)
  • Agmial2/ca_manager/src/cam/reader: EditFeature.java (+2 -1), MugenPanel.java (+3 -3)
vloux 2007-09-12 17:30

*** empty log message ***

6039 lines of code changed in:

  • agmial_admin_guide.fr.pdf (del), agmial_admin_guide.fr.tex (del), howToUseMetadata.doc (del), howToUseMetadata.pdf (del)
  • doc: agmial_admin_guide_fr.tex (del), howToUseMetadata.pdf (new 6039)
vloux 2007-09-12 16:41

CAMControl not instanciated

2 lines of code changed in:

  • Agmial2/ca_manager/src/cam/lifecycle: ContextListener.java (+2 -2)
vloux 2007-05-29 16:03

BugFix:
incorrect deletion of HomologyAlignPanel
Wrong result number passed to HomologyAlignPanel

167 lines of code changed in:

  • Agmial2/pa_manager/src/pam/reader: HomologyAlignPanel.java (new 166), HomologyPanel.java (+1 -1)
vloux 2007-05-09 11:06

First commit for french version of admin guide (Merouane)

0 lines of code changed in:

  • doc: agmial_admin_guide_fr.tex (new)
vloux 2007-03-09 13:26

bugfix : pareo link
cdd graphic
missing features in protein panel

16 lines of code changed in:

  • Agmial2/pa_manager/src/pam/protdb: ProteinDB.java (+2 -2)
  • Agmial2/pa_manager/src/pam/reader: ExternalTools.java (+2 -2), HomologyGraphic.java (+5 -5), ProteinPanel.java (+7 -5)
vloux 2007-02-07 14:49

Added classes to manage goterms, keywords and origin of a match.

632 lines of code changed in:

  • BioTools: .checkclipse (new), .checkstyle (new), .classpath (new 9), .fbwarnings (new), .project (new 51), .umlproject (new), build.xml (+2 -6)
  • BioTools/.settings: org.eclipse.jdt.core.prefs (new 47)
  • BioTools/src/biotools/calc: HomologyResult.java (+5 -1)
  • BioTools/src/biotools/protein: Annot.java (+34), ProteinSwissEntry.java (new 341), ProteinSwissText.java (new 106), SwissEntry.java (del), SwissText.java (del), TextAnnot.java (+37)
vloux 2007-02-07 14:44

Keywords and Goterms summary

715 lines of code changed in:

  • Agmial2/pa_manager/src/pam/reader: FeaturePanel.java (new 399), HomologyPanel.java (+309 -88), ProteinPanel.java (+7 -279)
vloux 2007-02-05 10:54

Update prot_db sql creation script for informations from Prose (origin, goterms and kw)

111 lines of code changed in:

  • Agmial2/pa_manager/sql: protdb_creation.sql (+63), update_database.sql (+48 -1)
vloux 2007-01-25 18:10

Origin,goterms and Keyword display for homology result
Externalisation into HomologyPanel of HomologyResults display (from ProteinPanel)

476 lines of code changed in:

  • Agmial2/pa_manager/src/pam/admin: UpdateAnnotation.java (+1 -32), UpdateFunction.java (+3 -37), UpdateLists.java (+1 -1)
  • Agmial2/pa_manager/src/pam/protdb: GoListSchema.java (+1 -1)
  • Agmial2/pa_manager/src/pam/reader: HomologyAlignPanel.java (del), HomologyGraphic.java (+32 -15), HomologyImagePanel.java (del), HomologyPanel.java (+321 -146), HomologyTable.java (+90 -34), ProteinPanel.java (+27 -220)
vloux 2007-01-25 18:02

Tests
GOTermTable & AnnotTable implements Iteratable to permits "foreach" loop
HomologyMatchPair.Ontology enum comes with abbreviation and definition
Various fixes

49 lines of code changed in:

  • BioTools/src/biotools/protein: AnnotTable.java (+6 -1), GOTerm.java (+15 -7), GOTermTable.java (+7 -1), PirText.java (+1 -1), ProteinFastAEntry.java (+2), ProteinFastAText.java (+2 -2), ProteinPirText.java (+1 -1)
  • BioTools/src/test/biotools: BioToolsTest.java (+1 -1)
  • BioTools/src/test/biotools/calc: BLASTTest.java (+3 -2), FROSTTest.java (+2 -2)
  • BioTools/src/test/biotools/protein: GOTermTest.java (+7 -7), ProteinTest.java (+2 -3)
vloux 2007-01-24 18:15

Added classes to manage goterms, keywords and origin of a match.
Display of origin in table and graphics

604 lines of code changed in:

  • Agmial2/pa_manager/src/pam/protdb: GoListSchema.java (new 96), KwListSchema.java (new 94), MatchOriginSchema.java (new 80), PAMHomologyResult.java (+3), PAMHomologyResultSchema.java (+3), ProteinDB.java (+87 -2)
  • Agmial2/pa_manager/src/pam/reader: CDDTable.java (+15 -1), HomologyGraphic.java (+112 -32), HomologyTable.java (+47 -6), ProteinPanel.java (+67 -60)
  • Agmial2/pa_manager/web: context.xml.in (changed)
  • Agmial2/pa_manager/web/images: go-down.png (new), go-jump.png (new), go-up.png (new)
vloux 2007-01-24 18:09

Added classes to manage goterms, keywords and origin of a match.
Display of origin in table and graphics

238 lines of code changed in:

  • BioTools/src/biotools/calc: HomologyMatch.java (+93 -1), HomologyMatchPair.java (+6 -1), HomologyResult.java (+1 -1)
  • BioTools/src/biotools/protein: AnnotTable.java (+6 -1), GOTerm.java (+27 -5), GOTermTable.java (new 64), TextAnnot.java (+11)
  • BioTools/src/test/biotools/protein: GOTermTest.java (+29 -10), ProteinPackageTest.java (+1)
vloux 2007-01-11 17:49

GOterm encapsulation class with real pieces of java1.5 inside

323 lines of code changed in:

  • BioTools/src/biotools/protein: GOTerm.java (new 196)
  • BioTools/src/test/biotools/protein: GOTermTest.java (new 127)
vloux 2007-01-11 10:50

Changed DetrmineFunctionAction to trace where automartic annotation come from.
Authorized Manager to change status from Automatic down gto Original

139 lines of code changed in:

  • Agmial2/pa_manager/src/pam/admin: ProteinSourceAdminImpl.java (+51 -28)
  • Agmial2/pa_manager/src/pam/control: DetermineFunctionAction.java (+88 -47)

(143 more)

Generated by StatCVS 0.3