|
|
|
@3325
|
9 years |
Peter |
new functions phred and phred_inv that calculate phred scaled …
|
|
|
|
@3324
|
9 years |
Peter |
grammar in comment
|
|
|
|
@3323
|
9 years |
Peter |
prefer strcmp over generic std::equal
|
|
|
|
@3322
|
9 years |
Peter |
change name of test function to more descriptive …
|
|
|
|
@3320
|
9 years |
Peter |
speedup. assume Distance is symmetric. closes #814
|
|
|
|
@3319
|
9 years |
Peter |
avoid long line
|
|
|
|
@3318
|
9 years |
Peter |
closes #813
|
|
|
|
@3317
|
9 years |
Peter |
refs #806 add test for Pileup class
|
|
|
|
@3316
|
9 years |
Peter |
remove trailing ws
|
|
|
|
@3315
|
9 years |
Peter |
added inclusion of boost iterator_facade header. refs #803.
|
|
|
|
@3314
|
9 years |
Peter |
new test class: weighted_iterator_archetype. refs #803
|
|
|
|
@3313
|
9 years |
Peter |
Correct syntax so it works in VPATH build. Correct yat-hello source so …
|
|
|
|
@3312
|
9 years |
Peter |
correct lazycheck deps
|
|
|
|
@3311
|
9 years |
Peter |
append EXTRA_DIST with some m4 files that were missing in dist (only …
|
|
|
|
@3310
|
9 years |
Peter |
a first version of new class Pileup. refs #806
|
|
|
|
@3309
|
9 years |
Peter |
fixes #811
|
|
|
|
@3308
|
9 years |
Peter |
fixed two more glitches in the new version of 'make …
|
|
|
|
@3306
|
9 years |
Peter |
merge ptach release 0.12.1 into trunk
|
|
|
|
@3299
|
9 years |
Peter |
fix some glitches in make release-tag-upload rule (found while …
|
|
|
|
@3298
|
9 years |
Peter |
Yates' correction in Fisher's exact test. fixes #807.
|
|
|
|
@3297
|
9 years |
Peter |
fix mess up caused in latest merge (r3295).
|
|
|
|
@3295
|
9 years |
Peter |
merge release 0.12 into trunk
|
|
|
|
@3290
|
9 years |
Peter |
refs #803. Correct docs and reflect that random access iterators are …
|
|
|
|
@3289
|
9 years |
Peter |
refs #803. use boost concepts in Spearman.
|
|
|
|
@3288
|
9 years |
Peter |
add doxygen since tag
|
|
|
|
@3287
|
9 years |
Peter |
new function sum_weight
|
|
|
|
@3286
|
9 years |
Peter |
fixed docs typo
|
|
|
|
@3285
|
9 years |
Peter |
refs #803. Use boost concepts in sort_index. Make requirements more …
|
|
|
|
@3283
|
9 years |
Peter |
remove trailing WS
|
|
|
|
@3282
|
9 years |
Peter |
avoid extra tabs
|
|
|
|
@3281
|
9 years |
Peter |
Using boost concepts to define requirments in
Centralizer. …
|
|
|
|
@3280
|
9 years |
Peter |
avoid tabs on otherwise empty lines
|
|
|
|
@3279
|
9 years |
Peter |
use boost_concepts requirements in random namespace. refs #803
|
|
|
|
@3278
|
9 years |
Peter |
use boost concept requirements in random namespace. refs #803
|
|
|
|
@3277
|
9 years |
Peter |
add some aliases to boost iterator concepts, for convenience
|
|
|
|
@3276
|
9 years |
Peter |
ref #803. revert part of r3273 for the same reason as explained in r3275
|
|
|
|
@3274
|
9 years |
Peter |
refs #803. record r3273 in NEWS
|
|
|
|
@3273
|
9 years |
Peter |
refs #803. Extend iterator tests using boost concepts. For …
|
|
|
|
@3270
|
9 years |
Peter |
When a project has a files that depends on the svn revsion such as …
|
|
|
|
@3269
|
9 years |
Peter |
fix some issues in YAT_SVN_RELEASE
|
|
|
|
@3268
|
9 years |
Peter |
fix that check-svn-diff exit 1 on success.
|
|
|
|
@3267
|
9 years |
Peter |
fix broken make rule 'check-svn-diff'; regressed in r3246
|
|
|
|
@3266
|
9 years |
Peter |
fixes #802
|
|
|
|
@3259
|
9 years |
Peter |
deprecated class Range. closes #786
|
|
|
|
@3258
|
9 years |
Peter |
correct docs of YAT_DEV_BUILD
|
|
|
|
@3257
|
9 years |
Peter |
added missing deprecated attribute
|
|
|
|
@3256
|
9 years |
Peter |
prefix DEV_BUILD with YAT_ (or uppercase(PACKAGE_) in general case, so …
|
|
|
|
@3255
|
9 years |
Peter |
removed repeat typedef
|
|
|
|
@3254
|
9 years |
Peter |
fixes #799
|
|
|
|
@3253
|
9 years |
Peter |
refs #799. get_error: don't use operator<< on Key just to create an …
|
|
|
|
@3252
|
9 years |
Peter |
avoid split in Codon
|
|
|
|
@3251
|
9 years |
Peter |
remove WS
|
|
|
|
@3250
|
9 years |
Peter |
remove gen_announce.sh.in since creation of announcement is now coded …
|
|
|
|
@3249
|
9 years |
Peter |
mention Deleter in SmartPtr? doc
|
|
|
|
@3248
|
9 years |
Peter |
update RP instructions to reflect that sf_user is no longer hard-coded
|
|
|
|
@3247
|
9 years |
Peter |
docs: fixed typo in example code
|
|
|
|
@3246
|
9 years |
Peter |
move some more targets from Makefile.am to macro YAT_SVN_RELEASE. Make …
|
|
|
|
@3245
|
9 years |
Peter |
avoid sorting entire range; instead let Percentiler be clever
|
|
|
|
@3244
|
9 years |
Peter |
prefer range constructor
|
|
|
|
@3243
|
9 years |
Peter |
speed up Percentiler when input range is unweighted and unsorted. Do …
|
|
|
|
@3242
|
9 years |
Peter |
docs typo (and English)
|
|
|
|
@3241
|
9 years |
Peter |
prefer range constructor over assigning with std::copy. remove dead code
|
|
|
|
@3240
|
9 years |
Peter |
remove WS
|
|
|
|
@3239
|
9 years |
Peter |
prefer range constructor over copy range with std::copy
|
|
|
|
@3238
|
9 years |
Peter |
sort_index: add some compile tests, CONCEPT_ASSERTs, and add docs on …
|
|
|
|
@3237
|
9 years |
Peter |
re-write sort_index so it's not limited to ranges of double but work …
|
|
|
|
@3236
|
9 years |
Peter |
BH correction on unsorted range. closes #796
|
|
|
|
@3232
|
9 years |
Peter |
tidy up indentation, and minor code change
|
|
|
|
@3231
|
9 years |
Peter |
tweak for clarity
|
|
|
|
@3230
|
9 years |
Peter |
typo
|
|
|
|
@3229
|
9 years |
Peter |
translate variables when PACKAGE is not suitable as shell variable or …
|
|
|
|
@3228
|
9 years |
Peter |
test for YAT_HEADER_ASSERT
|
|
|
|
@3227
|
9 years |
Peter |
improve 'required' field. The tests use aclocal via the bootstrap …
|
|
|
|
@3226
|
9 years |
Peter |
New macro YAT_HEADER_ASSERT
|
|
|
|
@3225
|
9 years |
Peter |
make code more readable
|
|
|
|
@3224
|
9 years |
Peter |
improve documentation; remove trailing WS
|
|
|
|
@3223
|
9 years |
Peter |
add pointer to boost::lockfree
|
|
|
|
@3220
|
9 years |
Peter |
bump version to 0.13pre
|
|
|
|
@3219
|
9 years |
Peter |
fix typo
|
|
|
|
@3217
|
9 years |
Peter |
update copyright years
|
|
|
|
@3216
|
9 years |
Peter |
fix svn targets so they work also in VPATH (alias doesn't work …
|
|
|
|
@3215
|
9 years |
Peter |
Prepare 0.12-stable branch
|
|
|
|
@3214
|
9 years |
Peter |
fixes #789. Change behavious of configure so that if INTERNAL_CXXFLAGS …
|
|
|
|
@3213
|
9 years |
Peter |
three new cigar functions
|
|
|
|
@3212
|
9 years |
Peter |
move Cigar defines to a separate file
|
|
|
|
@3211
|
9 years |
Peter |
improve docs of CIGAR
|
|
|
|
@3210
|
9 years |
Peter |
update copyright years
|
|
|
|
@3209
|
9 years |
Peter |
add missing source file and fix compilation error --without-samtools
|
|
|
|
@3208
|
9 years |
Peter |
record r3207 in NEWS
|
|
|
|
@3207
|
9 years |
Peter |
make constructor utility::Aligner(double, double) explicit
|
|
|
|
@3206
|
9 years |
Peter |
mention new class SmithWaterman? in Aligner::smith_waterman
|
|
|
|
@3205
|
9 years |
Peter |
implement new class SmithWaterman?
|
|
|
|
@3204
|
9 years |
Peter |
interface of new convenience class SmithWaterman? that uses the Aligner …
|
|
|
|
@3203
|
9 years |
Peter |
improve docs of CIGAR. closes #785
|
|
|
|
@3202
|
9 years |
Peter |
make Cigar work also without bam.h, refs #785. #define YAT_CIGAR_ etc …
|
|
|
|
@3201
|
9 years |
Peter |
add #define YAT_HAVE_LIBBAM to API and replace HAVE_LIBBAM accordingly.
|
|
|
|
@3200
|
9 years |
Peter |
implement first version of CIGAR (refs #785). Note, this revision does …
|
|
|
|
@3199
|
9 years |
Peter |
fixes #790
|
|
|
|
@3198
|
9 years |
Peter |
refs #790. Prefer checking (in configure) whether boost work rather …
|
|
|
|
@3197
|
9 years |
Peter |
refs #790. workaround for old boost
|
|
|
|
