StatCVS - Directory src/jalview/io/

Lines of Code

src/jalview/io/ Lines of Code

Developers

Author	Changes	Lines of Code	Lines per Change
Totals	773 (100.0%)	39382 (100.0%)	50.9
andrew	430 (55.6%)	17792 (45.2%)	41.3
jprocter	252 (32.6%)	13694 (34.8%)	54.3
jimp	59 (7.6%)	7262 (18.4%)	123.0
amwaterhouse	32 (4.1%)	634 (1.6%)	19.8

Most Recent Commits

jprocter 2010-09-15 15:03

added colour by label to feature type colourspec and gff statement to allow mixed jalview colour specs and gff feature specs

0 lines of code changed in:

src/jalview/io: FeaturesFile.java (changed)

jprocter 2010-08-20 12:56

wrapped code from URL retrieval tester as a function to determine correct protocol to retrieve data of a certain type from a datasource string. note - not rigourously tested

182 lines of code changed in:

src/jalview/io: AppletFormatAdapter.java (+182 -10)

jprocter 2010-06-14 12:21

patch for JAL-572

0 lines of code changed in:

src/jalview/io: StockholmFile.java (changed)

jprocter 2010-06-11 16:06

stockholm added as readable format (Lauren Lui commit)

3 lines of code changed in:

src/jalview/io: AppletFormatAdapter.java (+3 -3)

jprocter 2010-06-06 15:57

patch for JAL-542

0 lines of code changed in:

src/jalview/io: AnnotationFile.java (changed)

jprocter 2010-06-03 16:13

patch ensuring annotation is output correctly re * JAL-554

14 lines of code changed in:

src/jalview/io: FormatAdapter.java (+14 -11)

jprocter 2010-06-03 16:12

patch and error reports re JAL-554

0 lines of code changed in:

src/jalview/io: AnnotationFile.java (changed)

jprocter 2010-04-30 10:29

jalview 2.5 release banner

675 lines of code changed in:

src/jalview/io: .cvsignore (+2 -1), AMSAFile.java (+15 -16), AlignFile.java (+20 -21), AnnotationFile.java (changed), AppletFormatAdapter.java (+46 -39), BLCFile.java (+18 -19), ClansFile.java (changed), ClustalFile.java (+12 -13), DBRefFile.java (changed), FastaFile.java (+21 -22), FeaturesFile.java (changed), FileLoader.java (+24 -22), FileParse.java (+37 -18), FormatAdapter.java (+28 -30), HTMLOutput.java (+12 -13), IdentifyFile.java (+32 -34), JPredFile.java (+31 -30), JalviewFileChooser.java (+12 -13), JalviewFileFilter.java (+12 -13), JalviewFileView.java (+12 -13), JnetAnnotationMaker.java (+19 -20), MSFfile.java (+20 -21), MatrixFile.java (changed), ModellerDescription.java (+15 -16), NewickFile.java (+49 -50), PIRFile.java (+12 -13), PfamFile.java (+14 -14), PileUpfile.java (+17 -18), SimpleBlastFile.java (+43 -20), StockholmFile.java (changed), VamsasAppDatastore.java (+135 -104), WSWUBlastClient.java (+17 -18)

jprocter 2010-04-29 16:03

isAligned assertion (bug 0008144)

1 lines of code changed in:

src/jalview/io: VamsasAppDatastore.java (+1 -1)

jprocter 2010-04-28 11:16

group/annotation association

0 lines of code changed in:

src/jalview/io: AnnotationFile.java (changed)

jprocter 2010-04-23 16:59

skips any annotation that appears to be identical to existing autogenerated annotation on the alignment.

0 lines of code changed in:

src/jalview/io: AnnotationFile.java (changed)

jprocter 2010-04-23 16:11

next attempt for Bug #36198 - appears to work reproducibly

0 lines of code changed in:

src/jalview/io: AnnotationFile.java (changed)

jprocter 2010-04-22 15:15

non-positional feature export in gff and features file: bug #54325

0 lines of code changed in:

src/jalview/io: FeaturesFile.java (changed)

jprocter 2010-04-16 17:43

patch for bug #36198 - more to follow on Monday.

0 lines of code changed in:

src/jalview/io: AnnotationFile.java (changed)

jprocter 2010-04-05 16:38

javadoc, and unimplemented warning for group associated annotation (not shared to vamsas session in 2.5)

9 lines of code changed in:

src/jalview/io: VamsasAppDatastore.java (+9 -1)

jprocter 2010-03-26 12:19

todo for graduated feature colours

0 lines of code changed in:

src/jalview/io: FeaturesFile.java (changed)

jprocter 2010-03-22 17:13

See note in Mantis bug #55537 : inconsistency between loading in exported histogram annotation and annotation row type dependent parsing of the column annotation fields.

0 lines of code changed in:

src/jalview/io: AnnotationFile.java (changed)

jprocter 2010-03-18 10:38

disabled simple blast parser for 2.4.1 release

8 lines of code changed in:

src/jalview/io: AppletFormatAdapter.java (+4 -4), IdentifyFile.java (+4 -2)

jprocter 2010-03-17 17:39

simple query anchored blast report parser (shh!)
main method tester: also tries to output imported alignment as FASTA

19 lines of code changed in:

src/jalview/io: AppletFormatAdapter.java (+19 -4)

jprocter 2010-03-17 17:38

simple query anchored blast report parser (shh!)

280 lines of code changed in:

src/jalview/io: IdentifyFile.java (+9 -1), SimpleBlastFile.java (new 271)

(385 more)