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../
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data
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2888
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10 years
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Peter |
add example SAM file. refs #729
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yat-hello
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3330
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8 years
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Peter |
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alignment2.cc
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2.8 KB
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2881
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Peter |
Define PP variables in config.h rather than in CPPFLAGS. Include …
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alignment.cc
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4.0 KB
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2881
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10 years
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Peter |
Define PP variables in config.h rather than in CPPFLAGS. Include …
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averager1.cc
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1.2 KB
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2881
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10 years
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Peter |
Define PP variables in config.h rather than in CPPFLAGS. Include …
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averager3.cc
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1.3 KB
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2881
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Peter |
Define PP variables in config.h rather than in CPPFLAGS. Include …
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averager4.cc
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4.0 KB
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2881
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Peter |
Define PP variables in config.h rather than in CPPFLAGS. Include …
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averager.cc
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14.9 KB
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3330
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8 years
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Peter |
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bam.cc
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8.0 KB
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3384
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8 years
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Peter |
closes #826
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bam_header2.cc
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1.7 KB
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3210
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9 years
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Peter |
update copyright years
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bam_header.cc
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2.3 KB
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3210
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Peter |
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bam_iterator.cc
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3.6 KB
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3210
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Peter |
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bam_pair_analyse.cc
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1.7 KB
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3295
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9 years
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Peter |
merge release 0.12 into trunk
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bam_pair_iterator.cc
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2.5 KB
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3295
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9 years
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Peter |
merge release 0.12 into trunk
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bam_read_filter.cc
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1.7 KB
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3210
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Peter |
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bam_region_iterator.cc
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2.4 KB
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3210
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Peter |
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cigar2.cc
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1.7 KB
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3342
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8 years
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Peter |
merge 0.12.2 into trunk
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cigar.cc
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3.4 KB
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3213
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9 years
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Peter |
three new cigar functions
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cigar_iterator.cc
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2.8 KB
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3372
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8 years
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Peter |
Fix bug in CigarIterator? that assumed BASE could be constructed from …
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cmd_test.sh
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978 bytes
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3114
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9 years
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Peter |
update copyright years
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codon.cc
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1.8 KB
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3330
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Peter |
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commandline.cc
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18.2 KB
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2893
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10 years
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Peter |
run (also C++) tests in specific test dir so test can create temporary …
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concept.cc
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2.3 KB
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2919
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10 years
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Peter |
update copyright years
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consensus_inputranker.cc
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3.1 KB
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2919
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10 years
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Peter |
update copyright years
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crossvalidation.cc
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2.5 KB
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2919
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10 years
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Peter |
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data_lookup_1d.cc
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5.6 KB
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3114
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Peter |
update copyright years
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data_weight.cc
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1.6 KB
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2919
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Peter |
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data_weight_proxy.cc
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3.1 KB
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3330
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8 years
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Peter |
update copyright years
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defs.sh.in
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4.0 KB
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3365
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Peter |
Use pc from zlib and htslib when linking against those
packages. …
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deleter.cc
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1.3 KB
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2881
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10 years
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Peter |
Define PP variables in config.h rather than in CPPFLAGS. Include …
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distance.cc
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8.9 KB
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2919
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10 years
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Peter |
update copyright years
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dna.cc
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3.4 KB
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2881
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10 years
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Peter |
Define PP variables in config.h rather than in CPPFLAGS. Include …
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doxygen_test.sh
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1.1 KB
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3114
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Peter |
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ensemble.cc
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5.7 KB
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2919
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10 years
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Peter |
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feature_selection.cc
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3.4 KB
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2919
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10 years
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Peter |
update copyright years
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fileutil.cc
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6.6 KB
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2919
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10 years
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Peter |
update copyright years
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fisher.cc
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4.3 KB
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3298
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9 years
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Peter |
Yates' correction in Fisher's exact test. fixes #807.
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gen_libmy_shared.sh
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1.8 KB
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3130
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9 years
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Peter |
merge release 0.11 into trunk
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gen_libmy_static.sh
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1.5 KB
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3130
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9 years
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Peter |
merge release 0.11 into trunk
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genomic_position.cc
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1.4 KB
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2919
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10 years
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Peter |
update copyright years
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getline_iterator.cc
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2.0 KB
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2919
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10 years
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Peter |
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gff.cc
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3.1 KB
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2881
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Peter |
Define PP variables in config.h rather than in CPPFLAGS. Include …
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help.cc
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1.2 KB
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2919
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Peter |
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help_test.sh
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1.3 KB
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3114
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Peter |
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histogram.cc
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2.2 KB
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2919
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Peter |
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igp.cc
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1.4 KB
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2919
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10 years
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Peter |
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index.cc
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2.7 KB
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2919
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10 years
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Peter |
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init.sh
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2.5 KB
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3036
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Peter |
common_defs does two things: 1) init test scripts 2) defines some …
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inputranker.cc
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1.9 KB
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2919
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10 years
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Peter |
update copyright years
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interpolation.cc
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3.8 KB
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2919
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10 years
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Peter |
update copyright years
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iterator.cc
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19.8 KB
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3393
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8 years
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Peter |
refs #803
The std::random_access_iterator promises that iterator …
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kendall.cc
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4.0 KB
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2881
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10 years
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Peter |
Define PP variables in config.h rather than in CPPFLAGS. Include …
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kernel.cc
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7.3 KB
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2919
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10 years
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Peter |
update copyright years
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kernel_lookup.cc
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5.3 KB
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2919
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10 years
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Peter |
update copyright years
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kernel_matrix.cc
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1.6 KB
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3190
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9 years
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Peter |
new class KernelMatrix?. closes #381
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kernel_pca.cc
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4.3 KB
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2919
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10 years
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Peter |
update copyright years
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knn.cc
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11.2 KB
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2919
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10 years
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Peter |
update copyright years
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kolmogorov_smirnov.cc
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7.3 KB
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3018
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10 years
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Peter |
merge patch release 0.10.2 into trunk
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large_file.cc
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1.5 KB
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3114
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9 years
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Peter |
update copyright years
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likelihood_ratio_test_binomial.cc
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1.4 KB
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3138
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9 years
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Peter |
change name of class and implement function llr(). closes #769
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Makefile
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798 bytes
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2749
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11 years
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Peter |
add small convenience Makefiles in subdirs. closes #703
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Makefile.am
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11.8 KB
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3394
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8 years
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Peter |
remove static_test.sh. The test is identical with yat_m4_test.sh …
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matrix.cc
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7.7 KB
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2881
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10 years
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Peter |
Define PP variables in config.h rather than in CPPFLAGS. Include …
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matrix_lookup.cc
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6.3 KB
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2919
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10 years
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Peter |
update copyright years
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matrix_lookup_weighted.cc
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3.3 KB
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2919
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10 years
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Peter |
update copyright years
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matrix_weighted.cc
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3.1 KB
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2919
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10 years
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Peter |
update copyright years
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merge.cc
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3.3 KB
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2919
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10 years
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Peter |
update copyright years
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merge_iterator.cc
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3.7 KB
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3387
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8 years
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Peter |
refs #803. MergeIterator?
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nbc.cc
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1.8 KB
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2919
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10 years
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Peter |
update copyright years
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ncc.cc
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11.4 KB
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2919
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10 years
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Peter |
update copyright years
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nni.cc
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5.9 KB
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2919
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10 years
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Peter |
update copyright years
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normalization.cc
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18.4 KB
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3342
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8 years
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Peter |
merge 0.12.2 into trunk
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ostream_iterator.cc
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1.6 KB
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3152
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9 years
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Peter |
add missing source file. refs #770
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pca.cc
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1.6 KB
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2919
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10 years
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Peter |
update copyright years
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phred.cc
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1.4 KB
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3325
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8 years
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Peter |
new functions phred and phred_inv that calculate phred scaled …
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pileup.cc
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8.8 KB
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3371
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8 years
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Peter |
fix typo
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queue2.cc
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1.9 KB
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3063
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10 years
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Peter |
add another test for new class Queue
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queue.cc
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1.7 KB
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3062
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10 years
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Peter |
implement copy and assignment (compiler generated does not compile …
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range.cc
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1.5 KB
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3330
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8 years
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Peter |
update copyright years
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README
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4.6 KB
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2754
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11 years
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Peter |
avoid suggesting bug reports to trac, prefer single quote (rather than …
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regression.cc
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17.2 KB
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3114
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9 years
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Peter |
update copyright years
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rnd.cc
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1.9 KB
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2919
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10 years
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Peter |
update copyright years
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rng-mt.cc
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3.6 KB
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2943
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10 years
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Peter |
merge release 0.10 into trunk
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roc.cc
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11.6 KB
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3114
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9 years
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Peter |
update copyright years
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scheduler.cc
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1.9 KB
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3348
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8 years
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Peter |
Replace Scheduler::launch() with a function Scheduler::wait(). Before …
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score.cc
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3.9 KB
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2919
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10 years
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Peter |
update copyright years
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segment.cc
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9.0 KB
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3360
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8 years
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Peter |
update copyright years
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smart_ptr.cc
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1.3 KB
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2919
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10 years
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Peter |
update copyright years
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smith_waterman.cc
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1.8 KB
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3209
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9 years
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Peter |
add missing source file and fix compilation error --without-samtools
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smoother.cc
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1.6 KB
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2919
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10 years
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Peter |
update copyright years
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spearman.cc
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4.7 KB
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2919
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10 years
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Peter |
update copyright years
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split.cc
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2.4 KB
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2881
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10 years
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Peter |
Define PP variables in config.h rather than in CPPFLAGS. Include …
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statistics.cc
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12.0 KB
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3330
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8 years
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Peter |
update copyright years
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stream_redirect.cc
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3.7 KB
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2919
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10 years
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Peter |
update copyright years
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subset_generator.cc
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11.3 KB
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2919
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10 years
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Peter |
update copyright years
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Suite.cc
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3.9 KB
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3210
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9 years
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Peter |
update copyright years
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Suite.h
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15.8 KB
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3322
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Peter |
change name of test function to more descriptive …
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svd.cc
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3.6 KB
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2919
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10 years
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Peter |
update copyright years
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svm.cc
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4.6 KB
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2919
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10 years
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Peter |
update copyright years
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svm_multi_class.cc
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4.9 KB
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2919
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10 years
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Peter |
update copyright years
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target.cc
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3.4 KB
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2919
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10 years
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Peter |
update copyright years
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ttest.cc
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1.7 KB
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3114
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9 years
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Peter |
update copyright years
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tukey.cc
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2.0 KB
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2919
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10 years
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Peter |
update copyright years
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utility.cc
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21.1 KB
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3390
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8 years
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Peter |
extend comment
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vector.cc
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11.2 KB
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2919
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10 years
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Peter |
update copyright years
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version.cc
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1.8 KB
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3114
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Peter |
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view.cc
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4.2 KB
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2919
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Peter |
update copyright years
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weighted_iterator_archetype.cc
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4.4 KB
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3379
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Peter |
avoid using weighted_iterator_archetype with …
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weighted_iterator_archetype.h
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5.1 KB
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3379
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8 years
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Peter |
avoid using weighted_iterator_archetype with …
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yat_config_cblas_test.sh
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1.0 KB
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3114
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9 years
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Peter |
update copyright years
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yat_config_test.sh
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1.3 KB
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3188
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9 years
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Peter |
merge patch release 0.11.2
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yat_cpp_add_flag_test.sh
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1.6 KB
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3114
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9 years
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Peter |
update copyright years
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yat_cxx_add_flag_test.sh
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1.5 KB
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3114
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9 years
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Peter |
update copyright years
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yat_have_svn_wc_test.sh
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1.1 KB
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3114
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9 years
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Peter |
update copyright years
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yat_header_assert_test.sh
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1.2 KB
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3228
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9 years
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Peter |
test for YAT_HEADER_ASSERT
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yat_ld_add_flag_test.sh
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1.6 KB
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3114
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9 years
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Peter |
update copyright years
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yat_lt_compile_ifelse_test.sh
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1.9 KB
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3113
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9 years
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Peter |
change YAT_USE_LIBTOOL_[PUSH|POP] so it only affects the linking tests …
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yat_lt_link_ifelse_test.sh
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2.4 KB
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3114
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9 years
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Peter |
update copyright years
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yat_lt_link_la_ifelse_test.sh
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1.5 KB
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3130
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9 years
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Peter |
merge release 0.11 into trunk
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yat_m4_test2.sh
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1.5 KB
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3114
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9 years
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Peter |
update copyright years
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yat_m4_test.sh
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1.6 KB
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3112
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9 years
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Peter |
In tests issue configure with --disable-shared/--disable-static if yat …
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yat_m4_with_bam_test.sh
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1.4 KB
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3112
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9 years
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Peter |
In tests issue configure with --disable-shared/--disable-static if yat …
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yat_msg_error_test2.sh
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1.2 KB
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3330
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8 years
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Peter |
update copyright years
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yat_msg_error_test.sh
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1.5 KB
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3330
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8 years
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Peter |
update copyright years
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yat_pc_test.sh
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3.0 KB
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3383
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8 years
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Peter |
avoid tab in the middle of line
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yat_prog_move_if_change_test.sh
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1.2 KB
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3114
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Peter |
update copyright years
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yat_revision_header_test.sh
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1.6 KB
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3114
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Peter |
update copyright years
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yat_svn_release_year_test.sh
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1.8 KB
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3114
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Peter |
update copyright years
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yat_svn_revision_test.sh
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1.3 KB
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3114
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Peter |
update copyright years
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yat_use_libtool_tag_test.sh
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1.4 KB
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3330
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8 years
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Peter |
update copyright years
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