BIOHDF
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AuthorCommitMessageCommit Date
Dana RobinsonDana Robinson
8d79770a5d8Bumped version number. Minor changes to configure.ac to avoid complaints from ancient automake.
Dana RobinsonDana Robinson
2327db3735cCreated branch for internals rework.
Dana RobinsonDana Robinson
bf5f72d69b4Undo of commit 163 while I work out a better scheme.
Dana RobinsonDana Robinson
78a61a1515bFixed a typo in the export alignments tool code that prevented iterator traversal.
Dana RobinsonDana Robinson
60957c6ecdaRemoved the array type creation call from biohdf_vector.c.
Dana RobinsonDana Robinson
34841cf398dUpdated the date in the user's guide.
Dana RobinsonDana Robinson
3dc03ffec3cAdded helpful text file to doxygen folder.
Dana RobinsonDana Robinson
c545eab23a7Updated install instructions in getting started document.
Dana RobinsonDana Robinson
735fdcdc8afChanged echo to printf in configure.ac since echo -n has different behavior on OS X.
Dana RobinsonDana Robinson
123b95c8ddfUpdated the getting started guide.
Dana RobinsonDana Robinson
9c3f6530dbeRemoved executable bit from test/test_biohdf.sh.in.
Dana RobinsonDana Robinson
8ecf2aa765aFixed error where test/test_biohdf.sh.in wasn't included in the distribution.
Dana RobinsonDana Robinson
b56e489d6ccAdded HDF5 bin/ path to the test script (with automatic fixup from configure).
Dana RobinsonDana Robinson
826c3c54b8fRemoved unecessary LDFLAGS entry.
Dana RobinsonDana Robinson
77376ee5d73Enabled silent buld rules.
Dana RobinsonDana Robinson
8bfa405a343Added automatic test script fixup.
Dana RobinsonDana Robinson
5ce9cb93415Use AC_SEARCH_LIBS and set LDFLAGS/CPPFLAGS so that the HDF5 library can be properly detected and tested.
Dana RobinsonDana Robinson
874ee7194a9Changed the makefile to use the correct soversion number.
Dana RobinsonDana Robinson
0db00979455Added a --with-hdf5=DIR option to configure.
Dana RobinsonDana Robinson
1441bf2bec6Updates to autotools files to produce a correct distribution tarball.
Dana RobinsonDana Robinson
94fd3264c90Removed spaces from names of files which need to be handled by automake.
Dana RobinsonDana Robinson
42e09df7493Bsearch improvements. (Not fully finished but software functions normally)
Dana RobinsonDana Robinson
e3539a423d4Finished updating alignments test program with more comprehensive tests (for now). There's a heap corruption issue in the alignments test program when exiting abnormally. I haven't been able to nail that down yet.
Dana RobinsonDana Robinson
e52e303b928Reworked some of the alignments testing.
Dana RobinsonDana Robinson
18abb4af6c6More test script modularity work.
Dana RobinsonDana Robinson
d2b43df3b9eMore tests converted to new modular format.
Dana RobinsonDana Robinson
9f39474f4c9New modular format for shell script tests and naming scheme for files.
Dana RobinsonDana Robinson
37a1407c762Fix to work around h5diff's inability to compare empty datasets.
Dana RobinsonDana Robinson
c1262c2ed8eIncomplete extended alignments tests.
Dana RobinsonDana Robinson
bbea316103aSkipping alignments tests due to h5diff issues.
Dana RobinsonDana Robinson
28be1d795a2Fixed a bug when BioHDF files with no index are opened. Temporarily disabled binary searches while I do some script work.
Dana RobinsonDana Robinson
e0d115ce919Fixed minor warnings.
Dana RobinsonDana Robinson
501b264ad41Fixed a minor warning in the preparse SAM code.
Dana RobinsonDana Robinson
80728cd5b32Updated the date in the documents and made a few small changes.
Dana RobinsonDana Robinson
2ace9983bc8Fixed some more properties destruction access errors.
Dana RobinsonDana Robinson
9a6b33eca55Updated SAM input files
Dana RobinsonDana Robinson
3cf867e6d3aFixed a bug in the import reads tool. Updated reads tests in test script and updated fastq files.
Dana RobinsonDana Robinson
c8a16fe8ed3Reworked test fastq files. Fixed a fastq parser bug.
Dana RobinsonDana Robinson
6010e584a22script changes
Dana RobinsonDana Robinson
fe61f7c78e2Script work, renamed some test files, deleted ginormous SAM file
Dana RobinsonDana Robinson
58ec627aa22More test script work.
Dana RobinsonDana Robinson
be5f1fd1295More test script work.
Dana RobinsonDana Robinson
84e49edd65afastq parse tests in shell script done.
Dana RobinsonDana Robinson
ddc0aec8c32More bsearch work.
Dana RobinsonDana Robinson
72864cfd86bBinary search work.
Dana RobinsonDana Robinson
61ddf51d8f2Modified error reporting code to avoid bad dereferences.
Dana RobinsonDana Robinson
6ad54e5f2d0Fixed line ending issues.
Dana RobinsonDana Robinson
9ca0bff1935Fixed a bad target name in the test Makefile.am
Dana RobinsonDana Robinson
56c476ff321- Import alignments program updated to use new error macros. - Minor change to import reads tool. - Updated Makefile to change order of tests and include shell script.
Dana RobinsonDana Robinson
9ff906242e3- Added new error handling to import reads tool. - Minor change to export alignments tool.