Changeset 5934


Ignore:
Timestamp:
May 8, 2020, 1:56:44 PM (4 weeks ago)
Author:
Nicklas Nordborg
Message:

References #1243: Improve status checking for NovaSeq?

Updated the novaseq_status.sh script to include:

  • FlowCellMode: (eg. SP or S1, etc.)
  • RunInfoDate: Date value from RunInfo.xml converted to same date format as other dates
  • TileTags: Number of <Tile> tags in RunInfo.xml
File:
1 edited

Legend:

Unmodified
Added
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  • other/pipeline/trunk/novaseq_status.sh

    r5856 r5934  
    6565  echo "Index2Read: `grep '<IndexRead2NumberOfCycles>' "${RUN_PARAMETERS}" | cut -d '>' -f 2 | cut -d '<' -f 1`"
    6666  echo "NovaSeqSerial: `grep '<InstrumentName>' "${RUN_PARAMETERS}" | cut -d '>' -f 2 | cut -d '<' -f 1`"
     67  echo "FlowCellMode: `grep '<FlowCellMode>' "${RUN_PARAMETERS}" | cut -d '>' -f 2 | cut -d '<' -f 1`"
    6768fi
    6869
     
    8384  echo "SwathCount: `grep -o 'SwathCount="[^"]*"' "${RUN_INFO}" | cut -d '"' -f 2`"
    8485  echo "TileCount: `grep -o 'TileCount="[^"]*"' "${RUN_INFO}" | cut -d '"' -f 2`"
     86  echo "TileTags: `grep '<Tile>' "${RUN_INFO}" | wc -l`"
     87  RUN_INFO_DATE=`grep '<Date>' "${RUN_INFO}" | cut -d '>' -f 2 | cut -d '<' -f 1`
     88  echo "RunInfoDate: `date -d "${RUN_INFO_DATE}" +"${DATE_FORMAT}"`"
    8589fi
    8690
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