fScan Reference Manual, Chapter 2 (CmdLineOptions): InVivo
Table InVivo -- Special case InVivo data tables
usage:
-table invivo studytable 1 studiesdir tbldir serage examage sernum
-table invivo studytable 2 studiesdir tbldir outdir flag [wdf] [ndays] [minseries]
-table invivo studytable 3 studiesdir tbldir outdir flag [wdf] [ndays] [minseries]
The TABLE INVIVO command performs customized manipulations on data tables describing MRI exam and scan data sets processed on InVivo's DynaSuite workstations. This command expects an existing table for its STUDYTABLE argument with a predefined structure (described below). For each separate study (row) in STUDYTABLE it will automatically create/read/modify an image series table (described below) unique to that study.
STUDYTABLE is the name of the data table being manipulated. In general this table should already exist (i.e., created by a previous Table command).
Mode 1 - find recently modified studies and update series tables
Look through STUDIESDIR to find series with DICOM files.
Consider only studies with StudyDir or StudyDir/DCM-Input modified within last NDAYS.
Find first DICOM file for each series to get patname, ID, date, time, etc fields
For each series, created DICOM file table, sort by imgnum, then create BXH file.
FLAG:
1-7 - downsampling by this many images (default=5)
8 - downsample 500+ series lists if NIMGS > 50
16 - downsample any DICOM series if NIMGS > 50
32 - omit DOC images
64 - omit multiple NQ image series
Downsampling by N means only 1 image is saved per N in list.
If NDAYS, only studies with scan_date less than NDAYS old (default=30).
Mode 3 - copy local data to OUTDIR for qualifying studies
For each qualifying study, copy BXH files to 4D format in new study dir
FLAG:
1 - create WDF file (assumed if WDF specified)
2 - deidentify name,patid
4 - remove dates
8 - NDAYS is relative to last update in STUDYTABLE, instead of scan date
16 - don't include NQ axial (series 53)
32 - don't include DTI orig images
64 - include Result series 500-799
128 - include float 800 series
256 - include integer 900 series
512 - include all NQ series
1024 - testing – don't create/copy files
If NDAYS, only studies with scan_date (or update date) less than NDAYS old (default=30).
Column description:
FLAG:
0 - study found, no series table yet
1 - study has been modified
2 - series table updated
3 - Local BXH file for each DICOM series
4 - Local WDF updated
8 - Images transferred to remote disk 4D BXH's
16 - Functional maps generated
32 - DTI tracking done
1024 - study in table but server data directory missing
2048 - study in table but scan name/date/time info missing