Differences between revisions 2 and 9 (spanning 7 versions)

Block 3 - Register V0

Description

This block batch registers images contained in newImageList.txt. That file is created by the user, typically by hand. It requires the SPC standards of an "END" at the end of the file and each image should be preceded by a space.

Assumptions

You have invoked a Bourne-Again Shell (bash) on ormacsrv1.lpl.arizona.edu
You have completed the processing steps in Block 1 - Setup Directory
You have populated the working directory with new images following the steps in:
- Test F3E Block 2 - Ingest
You have populated lsupport/newImageList.txt with the correct subset of images to register

User inputs

The filename of a list of images to register.

Procedure

1. Initial inputs

imgListName=whatever-list.txt

2. Set-up

# Set-Up
cd /SPC_Test/$testID/$dirID/
script
date
pwd
ls -l

3. Set-up batch register files

# set-up batch register files
ln -s lsupport/$imgListName make_script.in
ln -s scripts/make_scriptR.SEED make_scriptR.seed
make_scriptR
ls -l

4. Batch register images

# Batch register images
register -v
nohup sh run_script.b &

5. Monitor progress

# Monitor progress
ls -l *.INN *.OOT

6. Check results

# Check results
ls *OOT > tmpList
sh support/after.sh 0.5 tmpList
cat goodList 
cat badList
sh support/evalReg.sh badList

7. Fix unregistered images

# Fix unregistered images
.......

8. Clean directory

# Clean directory
sh rem_script.b
rm TESTFILES/*
rm nohup.out

9. Complete procedure

# Block Complete
exit
# Save block log
mv typescript step-reg

(Compiled by DL)

CategoryHowTos

-  ⇤ ← Revision 2 as of 2016-02-19 14:22:36 → 
  Size: 3237
  Editor: BMittan
  Comment:
+   ← Revision 9 as of 2016-03-15 10:50:20 → ⇥
  Size: 1908
  Editor: KristoferDrozd
  Comment:
-Deletions are marked like this.
+Additions are marked like this.
 Line 1:
+## page was renamed from Block 3 - Register V0
-Line 3:
+Line 4:
- (./) copied from working--needs revision
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-This block batch registers images contained in lsupport/PICTLIST.TXT.
+This block batch registers images contained in newImageList.txt.  That file is created by the user, typically by hand. It requires the SPC standards of an "END" at the end of the file and each image should be preceded by a space.
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- * You are a member of the group OREX\spc
 * You have set up a skeleton directory in the following format:
{{{
 /SPC_Test/F3G-Nav/
                   ORex/
                            DATA/
                   base/
                            IMAGEFILES/
                            SHAPEFILES/
                   lsupport/
                   orig/
                   results/
                   test/
}}}
 (./) Need to figure out how we will refer to these (block number? name?) and if they should be links.
-Line 27:
+Line 13:
- * You have populated the orig/ directory with test-specific images following the steps in:
  * Block 2 - Ingest
  * Block ?????????
 * You have populated lsupport/PICTLIST-forRegistering.TXT with the correct subset of images to register
+ * You have populated the working directory with new images following the steps in:
  * [[Test F3E Block 2 - Ingest]]
-Line 32:
+Line 16:
+ * You have populated lsupport/newImageList.txt with the correct subset of images to register
-Line 33:
+Line 18:
+----
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+Line 20:
- * '''testID''' - Name of the F3 test directory (for example, 'F3E-Limbs')
 * '''subTestID (if required)''' - Identifier for sub-test work (for example, 'F3G1')
 * '''dirID''' - Name of sub-directory in which to work (e.g. 'orig', or 'test')
 * '''blockID''' - User-specified identifier for typescript textfile name (for example, 'Block-03-01-Register-Images-F3G-GenericImages')
+The filename of a list of images to register.
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+Line 22:
+----
-Line 43:
+Line 27:
-Line 45:
+Line 28:
-# User inputs:
testID=F3G-Nav
#subTestID=F3G1
#subTestID=F3G2
#subTestID=F3G3
#subTestID=F3G4
#subTestID=F3G5
#subTestID=F3G6
subTestID=F3G7
dirID=test
#blockID=Block-03-01-Register-Images-F3G-GenericImages
blockID=Block-03-01-Register-Images-${subTestID}-Images
+imgListName=whatever-list.txt
-Line 72:
+Line 44:
-cp lsupport/PICTLIST-forRegistering.TXT make_script.in
cat make_script.in
cp scripts/make_scriptR.SEED make_scriptR.seed
cat make_scriptR.seed
+ln -s lsupport/$imgListName make_script.in
ln -s scripts/make_scriptR.SEED make_scriptR.seed
-Line 96:
+Line 66:
- (./) how to handle variance within?  Needed?
-Line 99:
+Line 68:
-sh support/logEvalP.sh 
cat logResults.txt 
cat lowImg.txt
cat redo.txt
convert TESTFILES/*.pgm TESTFILES/*.jpg
open TESTFILES/*.jpg
## [email protected]:
cp TESTFILES/*.jpg ~/send
# images inspected on home-machine
## END OF VARIANCE
+ls *OOT > tmpList
sh support/after.sh 0.5 tmpList
cat goodList 
cat badList
sh support/evalReg.sh badList
-Line 131:
+Line 95:
-if [ ! -d /SPC_Test/$testID/log ]; then
  mkdir /SPC_Test/$testID/log
fi
mv typescript /SPC_Test/$testID/log/log-typescript-${blockID}
+mv typescript step-reg