New format for sample sheets

Conan asked us to support the new sample sheet format that uses dashes for delimiters and includes a suffix that is separate from the extraction number. The pipeline code currently supports the dashes separator, but does not support the suffix. The sample sheet parser in the QAI code does not support either.

When the new format is supported, ask Conan to add a 150 character limit to the sample name when creating the sample sheet.

Here's our microtest sample sheet using the new format:

[Header]
IEMFileVersion,3
Investigator Name,DK
Project Name,23-Jan-2014
Experiment Name,23-Jan-2014
Date,01/23/2014
Workflow,GenerateFASTQ
Assay,Amplicon
Description,Amplicon
Chemistry,Amplicon
[Reads]
251
251
[Settings]
[Data]
Sample_ID,Sample_Name,Sample_Plate,Sample_Well,index,index2,Sample_Project,Description,GenomeFolder
CFE_MS1_23-Jan-2014_N501-N701_1234A--NULL--V3LOOP,1234A--NULL--V3LOOP,23-Jan-2014,N/A,TAAGGCGA,TAGATCGC,23-Jan-2014,Research:1234A--NULL--V3LOOP--FALSE Comments:1234A--NULL--V3LOOP-- Disablecontamcheck:1234A--NULL--V3LOOP--FALSE,
CFE_MS1_23-Jan-2014_N502-N701_2000A--NULL--V3LOOP,2000A--NULL--V3LOOP,23-Jan-2014,N/A,ACTCGCGT,ACGAGTGC,23-Jan-2014,Research:2000A--NULL--V3LOOP--FALSE Comments:2000A--NULL--V3LOOP-- Disablecontamcheck:2000A--NULL--V3LOOP--FALSE,
CFE_MS1_23-Jan-2014_N503-N701_2010A--NULL--V3LOOP,2010A--NULL--V3LOOP,23-Jan-2014,N/A,TAAAAAAA,ATTTTTTT,23-Jan-2014,Research:2010A--NULL--V3LOOP--FALSE Comments:2010A--NULL--V3LOOP-- Disablecontamcheck:2010A--NULL--V3LOOP--FALSE,
CFE_MS1_23-Jan-2014_N504-N701_2020A--NULL--GP41,2020A--NULL--GP41,23-Jan-2014,N/A,TTAAAAAA,AATTTTTT,23-Jan-2014,Research:2020A--NULL--GP41--FALSE Comments:2020A--NULL--GP41-- Disablecontamcheck:2020A--NULL--GP41--FALSE,
CFE_MS1_23-Jan-2014_N505-N701_2030A--NULL--V3LOOP,2030A--NULL--V3LOOP,23-Jan-2014,N/A,TTTAAAAA,AAATTTTT,23-Jan-2014,Research:2030A--NULL--V3LOOP--FALSE Comments:2030A--NULL--V3LOOP-- Disablecontamcheck:2030A--NULL--V3LOOP--FALSE,
CFE_MS1_23-Jan-2014_N506-N701_2040A--NULL--HLA-B,2040A--NULL--HLA-B,23-Jan-2014,N/A,TTTTAAAA,AAAATTTT,23-Jan-2014,Research:2040A--NULL--HLA-B--FALSE Comments:2040A--NULL--HLA-B-- Disablecontamcheck:2040A--NULL--HLA-B--FALSE,
CFE_MS1_23-Jan-2014_N507-N701_2050A--NULL--V3LOOP,2050A--NULL--V3LOOP,23-Jan-2014,N/A,TTTAAAAA,AAATTTTT,23-Jan-2014,Research:2050A--NULL--V3LOOP--FALSE Comments:2050A--NULL--V3LOOP-- Disablecontamcheck:2050A--NULL--V3LOOP--FALSE,
CFE_MS1_23-Jan-2014_N508-N701_2060A--NULL--V3LOOP,2060A--NULL--V3LOOP,23-Jan-2014,N/A,TTTAAAAA,AAATTTTT,23-Jan-2014,Research:2060A--NULL--V3LOOP--FALSE Comments:2060A--NULL--V3LOOP-- Disablecontamcheck:2060A--NULL--V3LOOP--FALSE,
CFE_MS1_23-Jan-2014_N509-N701_2070A--NULL--PR,2070A--NULL--PR,23-Jan-2014,N/A,TTTAAAAA,AAATTTTT,23-Jan-2014,Research:2070A--NULL--PR:FALSE Comments--2070A--NULL--PR-- Disablecontamcheck:2070A--NULL--PR--FALSE,
CFE_MS1_23-Jan-2014_N510-N701_2080A--NULL--V3LOOP,2080A--NULL--V3LOOP,23-Jan-2014,N/A,TTTAAAAA,AAATTTTT,23-Jan-2014,Research:2080A--NULL--V3LOOP--FALSE Comments:2080A--NULL--V3LOOP-- Disablecontamcheck:2080A--NULL--V3LOOP--FALSE,

Start by locating the pipeline sample-sheet handling and the QAI sample sheet parser referenced in the issue, then compare their parsing of dash-separated fields and extraction numbers. Use the provided microtest sample sheet as an input case. Done means the suffix is parsed separately in both components, and Conan has been asked to enforce the 150-character sample-name limit.