sampleSheetParser fails to parse combined sample names

[ArtPoon]

2014-03-31 15:01:57.857023 - [DEBUG] sampleSheetParser(<open file '/data/miseq/140214_M01841_0057_000000000-A64L9/SampleSheet.csv', mode 'rU' at 0xd934b70>)
2014-03-31 15:01:57.860683 - [ERROR] 50940ARPT-HCV-49541A-V-PR-RT_S14 not in SampleSheet.csv - cannot initiate mapping for this sample
2014-03-31 15:01:57.861117 - [ERROR] 50931A-HCV-49514A-V-PR-RT_S20 not in SampleSheet.csv - cannot initiate mapping for this sample
2014-03-31 15:01:57.861363 - [ERROR] 50966A-HCV-49532A-V-PR-RT_S9 not in SampleSheet.csv - cannot initiate mapping for this sample

[ArtPoon]

from SampleSheet.csv, sample name has format:
50928A_HCV;E98725-V_PR-RT
looks like we need to replace ';' with '-'

[ArtPoon]

actually, this is not the issue - the problem is that the new version of MiseqReporter is assigning S-numbers to samples that DO NOT correspond to their row number in the SampleSheet.csv file.

[ArtPoon]

Sample had been re-run but new SampleSheet.csv file was not propagated to network drive. Closing as is not pipeline related.