Activity by Clock Time
| Directory | Changes | Lines of Code | Lines per Change |
|---|---|---|---|
| Totals | 1030 (100.0%) | 85243 (100.0%) | 82.7 |
| src/jalview/gui/ | 102 (9.9%) | 15596 (18.3%) | 152.9 |
| lib/ | 30 (2.9%) | 15530 (18.2%) | 517.6 |
| src/jalview/appletgui/ | 20 (1.9%) | 7776 (9.1%) | 388.8 |
| src/jalview/io/ | 59 (5.7%) | 7262 (8.5%) | 123.0 |
| utils/jalopy/docs/ | 70 (6.8%) | 6928 (8.1%) | 98.9 |
| src/jalview/datamodel/ | 76 (7.4%) | 4695 (5.5%) | 61.7 |
| src/jalview/analysis/ | 48 (4.7%) | 4287 (5.0%) | 89.3 |
| src/jalview/ws/ | 77 (7.5%) | 3751 (4.4%) | 48.7 |
| src/ext/vamsas/ | 46 (4.5%) | 3023 (3.5%) | 65.7 |
| src/vamsas/objects/simple/ | 26 (2.5%) | 2375 (2.8%) | 91.3 |
| src/MCview/ | 17 (1.7%) | 1853 (2.2%) | 109.0 |
| help/html/menus/ | 41 (4.0%) | 1786 (2.1%) | 43.5 |
| help/html/features/ | 77 (7.5%) | 1744 (2.0%) | 22.6 |
| src/jalview/jbgui/ | 14 (1.4%) | 1730 (2.0%) | 123.5 |
| src/jalview/schemes/ | 7 (0.7%) | 1278 (1.5%) | 182.5 |
| / | 21 (2.0%) | 990 (1.2%) | 47.1 |
| help/html/ | 17 (1.7%) | 815 (1.0%) | 47.9 |
| src/jalview/util/ | 21 (2.0%) | 737 (0.9%) | 35.0 |
| help/html/calculations/ | 23 (2.2%) | 530 (0.6%) | 23.0 |
| src/jalview/bin/ | 15 (1.5%) | 412 (0.5%) | 27.4 |
| help/html/colourSchemes/ | 10 (1.0%) | 387 (0.5%) | 38.7 |
| help/ | 44 (4.3%) | 303 (0.4%) | 6.8 |
| doc/ | 6 (0.6%) | 302 (0.4%) | 50.3 |
| help/html/webServices/ | 24 (2.3%) | 283 (0.3%) | 11.7 |
| help/html/io/ | 11 (1.1%) | 250 (0.3%) | 22.7 |
| utils/ | 11 (1.1%) | 190 (0.2%) | 17.2 |
| src/jalview/jbappletgui/ | 1 (0.1%) | 136 (0.2%) | 136.0 |
| utils/jalopy/bin/ | 3 (0.3%) | 121 (0.1%) | 40.3 |
| help/html/editing/ | 4 (0.4%) | 72 (0.1%) | 18.0 |
| utils/jalopy/ | 1 (0.1%) | 53 (0.1%) | 53.0 |
| src/vamsas/ | 1 (0.1%) | 21 (0.0%) | 21.0 |
| resources/images/ | 11 (1.1%) | 10 (0.0%) | 0.9 |
| src/ext/jemboss/soap/ | 11 (1.1%) | 9 (0.0%) | 0.8 |
| src/jalview/math/ | 1 (0.1%) | 4 (0.0%) | 4.0 |
| resources/ | 1 (0.1%) | 2 (0.0%) | 2.0 |
| src/jalview/ | 1 (0.1%) | 1 (0.0%) | 1.0 |
| schemas/ | 1 (0.1%) | 1 (0.0%) | 1.0 |
| website/version2/examples/ | 1 (0.1%) | 0 (0.0%) | 0.0 |
| utils/jalopy/lib/ | 8 (0.8%) | 0 (0.0%) | 0.0 |
| src/jalview/biojava/dasobert/eventmodel/ | 5 (0.5%) | 0 (0.0%) | 0.0 |
| src/jalview/biojava/dasobert/dasregistry/ | 6 (0.6%) | 0 (0.0%) | 0.0 |
| src/jalview/biojava/dasobert/das2/io/ | 3 (0.3%) | 0 (0.0%) | 0.0 |
| src/jalview/biojava/dasobert/das2/ | 5 (0.5%) | 0 (0.0%) | 0.0 |
| src/jalview/biojava/dasobert/das/ | 3 (0.3%) | 0 (0.0%) | 0.0 |
| src/ext/jemboss/ | 4 (0.4%) | 0 (0.0%) | 0.0 |
| dist/ | 46 (4.5%) | 0 (0.0%) | 0.0 |
preliminary documentation for DNA->protein codon features and EMBL coding region parsing
0 lines of code changed in:
added doc for PDBResNum features
5 lines of code changed in:
reinstating class implementation.
1525 lines of code changed in:
checks for irreflexive mapping in main tester
4 lines of code changed in:
refactored to use jalview.analysis.Finder for searching alignment.
432 lines of code changed in:
kkv change
278 lines of code changed in:
Map arbitrary series of non-overlapping integer intervals on one range to another on another range - with an integer ratio for each range
278 lines of code changed in:
refactoring (added seqIndex/resIndex state for incremental search)
39 lines of code changed in:
refactored search algorithm from gui classes
235 lines of code changed in:
transfer resnum features now returns features (could be passed to feature renderer)
4 lines of code changed in:
reoganization of PDB sequence fetching for sequence annotation generated by PDBFile
84 lines of code changed in:
PDBChain maintains reference to dataset of sequences created by PDBfile reader.
30 lines of code changed in:
datasetSequence derive method and some checks
41 lines of code changed in:
javadoc
8 lines of code changed in:
added sequence feature copy constructor.
260 lines of code changed in:
transfer and update of sequenceFeatures for associated alignment sequence
fixed mapping bug for sequences that do not start at 1.
673 lines of code changed in:
random ';'
181 lines of code changed in:
transfer and update of sequenceFeatures for associated alignment sequence
179 lines of code changed in:
fixed last-residue bug and added sequence feature creation and transfer for resNum+insCode annotation for each sequence residue
302 lines of code changed in:
added resNum+insCode string field for truly unambiguous PDB atom entry referencing/display
4 lines of code changed in:
(365 more)