Dana Robinson bf5f72d69b4 Undo of commit 163 while I work out a better scheme. 31 Jan 2012 Dana Robinson 78a61a1515b Fixed a typo in the export alignments tool code that prevented iterator traversal. 31 Jan 2012 Dana Robinson 60957c6ecda Removed the array type creation call from biohdf_vector.c. 31 Jan 2012 Dana Robinson 34841cf398d Updated the date in the user's guide. 23 Dec 2011 Dana Robinson 3dc03ffec3c Added helpful text file to doxygen folder. 06 Dec 2011 Dana Robinson c545eab23a7 Updated install instructions in getting started document. 06 Dec 2011 Dana Robinson 735fdcdc8af Changed echo to printf in configure.ac since echo -n has different behavior on OS X. 22 Nov 2011 Dana Robinson 123b95c8ddf Updated the getting started guide. 22 Nov 2011 Dana Robinson 9c3f6530dbe Removed executable bit from test/test_biohdf.sh.in. 21 Nov 2011 Dana Robinson 8ecf2aa765a Fixed error where test/test_biohdf.sh.in wasn't included in the distribution. 21 Nov 2011 Dana Robinson b56e489d6cc Added HDF5 bin/ path to the test script (with automatic fixup from configure). 21 Nov 2011 Dana Robinson 826c3c54b8f Removed unecessary LDFLAGS entry. 21 Nov 2011 Dana Robinson 77376ee5d73 Enabled silent buld rules. 21 Nov 2011 Dana Robinson 8bfa405a343 Added automatic test script fixup. 21 Nov 2011 Dana Robinson 5ce9cb93415 Use AC_SEARCH_LIBS and set LDFLAGS/CPPFLAGS so that the HDF5 library can be properly detected and tested. 21 Nov 2011 Dana Robinson 874ee7194a9 Changed the makefile to use the correct soversion number. 17 Nov 2011 Dana Robinson 0db00979455 Added a --with-hdf5=DIR option to configure. 17 Nov 2011 Dana Robinson 1441bf2bec6 Updates to autotools files to produce a correct distribution tarball. 17 Nov 2011 Dana Robinson 94fd3264c90 Removed spaces from names of files which need to be handled by automake. 17 Nov 2011 Dana Robinson 42e09df7493 Bsearch improvements. (Not fully finished but software functions normally) 31 Aug 2011 Dana Robinson e3539a423d4 Finished 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. 31 Aug 2011 Dana Robinson e52e303b928 Reworked some of the alignments testing. 30 Aug 2011 Dana Robinson 18abb4af6c6 More test script modularity work. 30 Aug 2011 Dana Robinson d2b43df3b9e More tests converted to new modular format. 30 Aug 2011 Dana Robinson 9f39474f4c9 New modular format for shell script tests and naming scheme for files. 30 Aug 2011 Dana Robinson 37a1407c762 Fix to work around h5diff's inability to compare empty datasets. 29 Aug 2011 Dana Robinson c1262c2ed8e Incomplete extended alignments tests. 18 Aug 2011 Dana Robinson bbea316103a Skipping alignments tests due to h5diff issues. 18 Aug 2011 Dana Robinson 28be1d795a2 Fixed a bug when BioHDF files with no index are opened. Temporarily disabled binary searches while I do some script work. 17 Aug 2011 Dana Robinson e0d115ce919 Fixed minor warnings. 17 Aug 2011 Dana Robinson 501b264ad41 Fixed a minor warning in the preparse SAM code. 17 Aug 2011 Dana Robinson 80728cd5b32 Updated the date in the documents and made a few small changes. 17 Aug 2011 Dana Robinson 2ace9983bc8 Fixed some more properties destruction access errors. 26 Jul 2011 Dana Robinson 9a6b33eca55 Updated SAM input files 26 Jul 2011 Dana Robinson 3cf867e6d3a Fixed a bug in the import reads tool. Updated reads tests in test script and updated fastq files. 26 Jul 2011 Dana Robinson c8a16fe8ed3 Reworked test fastq files. Fixed a fastq parser bug. 26 Jul 2011 Dana Robinson 6010e584a22 script changes 26 Jul 2011 Dana Robinson fe61f7c78e2 Script work, renamed some test files, deleted ginormous SAM file 26 Jul 2011 Dana Robinson 58ec627aa22 More test script work. 25 Jul 2011 Dana Robinson be5f1fd1295 More test script work. 25 Jul 2011 Dana Robinson 84e49edd65a fastq parse tests in shell script done. 25 Jul 2011 Dana Robinson ddc0aec8c32 More bsearch work. 24 Jul 2011 Dana Robinson 72864cfd86b Binary search work. 21 Jul 2011 Dana Robinson 61ddf51d8f2 Modified error reporting code to avoid bad dereferences. 19 Jul 2011 Dana Robinson 6ad54e5f2d0 Fixed line ending issues. 19 Jul 2011 Dana Robinson 9ca0bff1935 Fixed a bad target name in the test Makefile.am 11 Jul 2011 Dana 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. 11 Jul 2011 Dana Robinson 9ff906242e3 - Added new error handling to import reads tool. - Minor change to export alignments tool. 08 Jul 2011 Dana Robinson 1966edc6a5b Updated export alignments tool to use new error macros. Minor change to export reads tool. 08 Jul 2011 Dana Robinson 78fa645e21a Fixed bug in export reads tool. 08 Jul 2011 
Dana Robinson