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jvs:fscan:manual:chapter2:invivo [2014/03/24 16:59]
voyvodic
jvs:fscan:manual:chapter2:invivo [2014/08/04 16:03] (current)
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 STUDYTABLE is the name of the data table being manipulated. In general this table should already exist (i.e., created by a previous [[jvs:​fscan:​manual:​chapter2:​table|Table]] command). STUDYTABLE is the name of the data table being manipulated. In general this table should already exist (i.e., created by a previous [[jvs:​fscan:​manual:​chapter2:​table|Table]] command).
- 
-==== Study table: 1 row per scan session==== 
-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 
- 
-==== Series tables -- Created automatically for each study in Study Table ==== 
  
 ==== Mode 1 - find recently modified studies and update series tables ==== ==== Mode 1 - find recently modified studies and update series tables ====
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 ==== Mode 2 - create local BXH header files for each series in qualifying studyies ==== ==== Mode 2 - create local BXH header files for each series in qualifying studyies ====
 For each series, created DICOM file table, sort by imgnum, then create BXH file. 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 ==== ==== Mode 3 - copy local data to OUTDIR for qualifying studies ====
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   * 2 - deidentify name,patid   * 2 - deidentify name,patid
   * 4 - remove dates   * 4 - remove dates
-  * 8 - don't include NQ axial (series 53) +  * 8 - NDAYS is relative to last update in STUDYTABLE, instead of scan date 
-  * 16 - don't include DTI orig images +  * 16 - don't include NQ axial (series 53) 
-  * 32 - include Result series 500-799 +  * 32 - don't include DTI orig images 
-  * 64 - include float 800 series +  * 64 - include Result series 500-799 
-  * 128 - include integer 900 series +  * 128 - include float 800 series 
-  * 256 - include all NQ series +  * 256 - include integer 900 series 
-  * 512 - testing -- don't create/copy files+  * 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). 
 + 
 +==== Study table format: 1 row per scan session==== 
 +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 
 + 
 +==== Series table format -- Created automatically for each study in Study Table ====
  
 **See Also:**\\ **See Also:**\\
jvs/fscan/manual/chapter2/invivo.1395680358.txt.gz · Last modified: 2014/08/04 16:03 (external edit)