illumina2cluster/rebin_undetermined.py: new program for redemultiplexing FASTQ files with undetermined indices.
illumina2cluster: 'rebin_undetermined.py' renamed to 'demultiplex_undetermined_fastq.py'.
illumina2cluster/demultiplex_undetermined_fastq.py: substantial updates to comments and docstrings.
illumina2cluster/verify_paired_2.py: new program, checks R1/R2 fastq file pair read headers match.
illumina2cluster: 'verify_paired_2.py' renamed to 'check_paired_fastqs.py'.
illumina2cluster.py/check_paired_fastqs.py: updated comments and docstrings.
QC-pipeline/qcreporter.py: add version (0.1.0) and write to report header along with date/time.
Updated ChangeLog.
QC-pipeline/qcreporter.py: put the per-base quality plot from FastQC into the top-level report.
Updated ChangeLog.
share/IlluminaData.py: in CasavaSampleSheet class, automatically remove double-quotes from fields.
illumina2cluster/update_sample_sheet.py: fix typo in command line option help text.
illumina2cluster/update_sample_sheet.py: add --fix-empty-projects option (populates blank SampleProjects).
illumina2cluster: renamed "update_sample_sheet.py" to "prep_sample_sheet.py".
illumina2cluster/prep_sample_sheet.py: added version number & updated comments and help text.
Updated ChangeLog.
illumina2cluster: updated README.
Updated ChangeLog.