Directory | Changes | Lines of Code | Lines per Change |
---|---|---|---|
Totals | 276 (100.0%) | 4302 (100.0%) | 15.5 |
ptpan/ | 98 (35.5%) | 3250 (75.5%) | 33.1 |
PROBE/ | 26 (9.4%) | 325 (7.6%) | 12.5 |
ARBDB/ | 43 (15.6%) | 181 (4.2%) | 4.2 |
WINDOW/ | 10 (3.6%) | 132 (3.1%) | 13.2 |
/ | 4 (1.4%) | 75 (1.7%) | 18.7 |
AWT/ | 11 (4.0%) | 43 (1.0%) | 3.9 |
READSEQ/ | 2 (0.7%) | 42 (1.0%) | 21.0 |
ARBDBPP/ | 6 (2.2%) | 39 (0.9%) | 6.5 |
AISC_COM/C/ | 8 (2.9%) | 33 (0.8%) | 4.1 |
EDIT4/ | 7 (2.5%) | 20 (0.5%) | 2.8 |
PROBE_DESIGN/ | 2 (0.7%) | 18 (0.4%) | 9.0 |
SECEDIT/ | 6 (2.2%) | 16 (0.4%) | 2.6 |
TOOLS/ | 2 (0.7%) | 14 (0.3%) | 7.0 |
PROBE_SERVER/PROBE_GROUP_DESIGN/ | 1 (0.4%) | 11 (0.3%) | 11.0 |
PROBE_SERVER/PROBE_GROUP/ | 2 (0.7%) | 11 (0.3%) | 5.5 |
NALIGNER/ | 1 (0.4%) | 9 (0.2%) | 9.0 |
SL/AW_NAME/ | 1 (0.4%) | 8 (0.2%) | 8.0 |
MULTI_PROBE/ | 3 (1.1%) | 6 (0.1%) | 2.0 |
ALIV3/ | 1 (0.4%) | 5 (0.1%) | 5.0 |
TESTVECTORFONT/ | 1 (0.4%) | 4 (0.1%) | 4.0 |
TESTAWT/ | 1 (0.4%) | 4 (0.1%) | 4.0 |
PROBE_SERVER/WORKER/ | 1 (0.4%) | 4 (0.1%) | 4.0 |
ORS_CGI/ | 1 (0.4%) | 4 (0.1%) | 4.0 |
MERGE/ | 1 (0.4%) | 4 (0.1%) | 4.0 |
GDE/AxML/ | 1 (0.4%) | 4 (0.1%) | 4.0 |
AISC_COM/AISC/ | 2 (0.7%) | 4 (0.1%) | 2.0 |
NTREE/ | 1 (0.4%) | 3 (0.1%) | 3.0 |
HELP_SOURCE/ | 1 (0.4%) | 3 (0.1%) | 3.0 |
AWTC/ | 2 (0.7%) | 3 (0.1%) | 1.5 |
ARB_GDE/ | 2 (0.7%) | 3 (0.1%) | 1.5 |
SL/HELIX/ | 1 (0.4%) | 2 (0.0%) | 2.0 |
RNA3D/ | 2 (0.7%) | 2 (0.0%) | 1.0 |
PHYLO/ | 1 (0.4%) | 2 (0.0%) | 2.0 |
ORS_SERVER/ | 1 (0.4%) | 2 (0.0%) | 2.0 |
GL/glpng/ | 1 (0.4%) | 2 (0.0%) | 2.0 |
GDE/SUPPORT/ | 2 (0.7%) | 2 (0.0%) | 1.0 |
GDE/CLUSTAL/ | 2 (0.7%) | 2 (0.0%) | 1.0 |
DIST/ | 2 (0.7%) | 2 (0.0%) | 1.0 |
TRS/ | 1 (0.4%) | 1 (0.0%) | 1.0 |
TEST/ | 1 (0.4%) | 1 (0.0%) | 1.0 |
SEER/ | 1 (0.4%) | 1 (0.0%) | 1.0 |
PRIMER_DESIGN/ | 1 (0.4%) | 1 (0.0%) | 1.0 |
PARSIMONY/ | 1 (0.4%) | 1 (0.0%) | 1.0 |
GENOM/ | 1 (0.4%) | 1 (0.0%) | 1.0 |
EDIT/ | 1 (0.4%) | 1 (0.0%) | 1.0 |
AWTI/ | 1 (0.4%) | 1 (0.0%) | 1.0 |
util/ | 5 (1.8%) | 0 (0.0%) | 0.0 |
GDE/CORE/ | 2 (0.7%) | 0 (0.0%) | 0.0 |
CONVERTALN/ | 1 (0.4%) | 0 (0.0%) | 0.0 |
* bugfixes for Probe Design
* adding Epsilon for floating point comparision
5 lines of code changed in 1 file:
* changed debug output
* fixed indentation
15 lines of code changed in 1 file:
* Bugfix to get probe design work
4 lines of code changed in 1 file:
* adding GB_init_gb() (needed for PT_new_design)
2 lines of code changed in 1 file:
* make proto (adding PP_buildPosWeight, PP_convertBondMatrix)
2 lines of code changed in 1 file:
* removing "static" of functions PP_buildPosWeight and PP_convertBondMatrix
* adding debug output
* moving debug output
26 lines of code changed in 1 file:
changing "gb_init_gb" -> "GB_init_gb" to make it global visible (needed for ptpan, new design)
3 lines of code changed in 4 files:
Bugfix for 64 bit
1 lines of code changed in 1 file:
* Fixed indentation
20 lines of code changed in 1 file:
* adding EPSILON define and change comparison of floats from "a == b" to "fabs(a - b) < EPSILON"
7 lines of code changed in 2 files:
* Added comment for ALLOWDOTSINMATCH and MAXDOTSINMATCH
5 lines of code changed in 1 file:
Bugfixes for ALLOWDOTSINMATCH
82 lines of code changed in 3 files:
ULLONG should be unsigned long long
1 lines of code changed in 1 file:
Bugfixes for ALLOWDOTSINMATCH
2 lines of code changed in 1 file:
* Increasing QUERYHITSHASHSIZE to avoid realloc() (needed for SSUParc'95, cttgtacacaccgcccgt, 5 mismatches)
1 lines of code changed in 1 file:
* Removing OpenDataBase() from main to LoadSpecies(). Arbdb access is
* now only needed in LoadSpecies() and since we can't close arbdb, this
* saves us lots of memory when we're not building the tree.
7 lines of code changed in 2 files:
* Removing #ifdef DEVEL_JB and making the code default
17 lines of code changed in 1 file:
* removing COMPRESSSEQUENCEWITHDOTSANDHYPHENS #ifdefs and making it default
5 lines of code changed in 6 files:
Bugfix
1 lines of code changed in 1 file:
* changed return type of CompressSequenceWithDotsAndHyphens
* removed use of CacheLoadData when compiling with COMPRESSSEQUENCEWITHDOTSANDHYPHENS to reduce memory usage
* introduced ALLOWDOTSINMATCH
127 lines of code changed in 6 files:
(105 more)