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This block additionally populates the F3 orig directory's IMAGEFILES/NOMINALS/ and SUMFILES/ sub-directories with Detailed Survey image files which are consistent across sub-tests in readiness for registering Detailed Survey images.
 This block batch registers images contained in lsupport/PICTLIST.TXT.
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 * You have completed the processing steps in [[How to Test Directory Set-Up - ORIG]]
 (./) If we include version number in title, we have to include it in here, too, for link to work. Is there a workaround?		  (./) Need to figure out how we will refer to these (block number? name?) and if they should be links.
 * You have completed the processing steps in How to Test Directory Set-Up - ORIG
 * You have populated the orig/ dircteory with test-specific images following the steps in:
  * How to Ingest Images - Test-Specific
  * How to How to ?????????
 * You have populated lsupport/PICTLIST-forRegistering.TXT with the correct subset of images to register
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 * '''testID''' - Name of the F3 test directory (for example, ''F3E-Limbs'')
 * '''blockID''' - User-specified identifier for typescript textfile name (for example, ''Block-02-01-IngestImages-TestSpecific'')		  * '''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')
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Copy and paste the following lines in the Unix terminal, only changing for your inputs and variances. Comment lines (# or ##) will appear in the typescript output.
=== 1. Initial inputs ===
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blockID=Block-02-01-IngestImages-TestSpecific #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-${subTestID}-Images
}}}
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=== 2. Set-up ===
{{{
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cd /SPC_Test/$testID cd /SPC_Test/$testID/$dirID/
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}}}
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## VARIANCE-F3G: === 3. Set-up batch register files ===
{{{
# set-up batch register files
cp lsupport/PICTLIST-forRegistering.TXT make_script.in
cat make_script.in
cp scripts/make_scriptR.SEED make_scriptR.seed
cat make_scriptR.seed
make_scriptR
ls -l
}}}
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# Populate base/IMAGEFILES/ with Detailed Survey test image files
rsync -ha base/F3G-IMAGEFILES/M60* base/IMAGEFILES/
rsync -ha base/F3G-IMAGEFILES/P60* base/IMAGEFILES/
ls -l base/IMAGEFILES/
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# Populate orig/NOMINALS/ with Detailed Survey MapCam image nominals
rsync -ha base/F3G-DSM-NOMINALS/M60* orig/NOMINALS/
ls -l orig/NOMINALS		 === 4. Batch register images ===
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# Populate orig/SUMFILES/ with Detailed Survey MapCam image sumfiles
rsync -ha base/F3G-DSM-SUMFILES/M60* orig/SUMFILES/
ls -l orig/SUMFILES		 {{{
# Batch register images
register -v
nohup sh run_script.b &
}}}
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=== 5. Monitor progress ===
{{{
# Monitor progress
ls -l *.INN *.OOT
}}}

=== 6. Check results ===
 (./) how to handle variance within? Needed?
{{{
# Check results
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
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}}}
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# Generate lsupport/PICTLIST.TXT
ls base/IMAGEFILES/M* | cut -d '/' -f 3 | cut -d '.' -f 1 > lsupport/PICTLIST.TXT
ls base/IMAGEFILES/P* | cut -d '/' -f 3 | cut -d '.' -f 1 >> lsupport/PICTLIST.TXT
sed -i -e 's/^/ /' lsupport/PICTLIST.TXT
echo END >> lsupport/PICTLIST.TXT
## VARIANCE-F3G:
# App and PS MapCam and PolyCam images and DS MapCam images
# in the region-of-interest only
awk '/M/ { print $1 }' lsupport/PICTLIST-TAG1-100mx100m.TXT > lsupport/PICTLIST.TXT
awk '/P59/ { print $1 }' lsupport/PICTLIST-TAG1-100mx100m.TXT >> lsupport/PICTLIST.TXT
sed -i -e 's/^/ /' lsupport/PICTLIST.TXT
echo END >> lsupport/PICTLIST.TXT
## END OF VARIANCE
cat lsupport/PICTLIST.TXT		 === 7. Fix unregistered images ===
{{{
# Fix unregistered images
.......
}}}
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# Generate list of images which require registering/autoregistering
## VARIANCE-F3G:
# DS MapCam images within the region-of-interest only.
# (PolyCam imgaes not included since the perturbations differ from sub-test to sub-test.)
awk '/M60/ { print $1 }' lsupport/PICTLIST-TAG1-100mx100m.TXT > lsupport/PICTLIST-forRegistering.TXT
sed -i -e 's/^/ /' lsupport/PICTLIST-forRegistering.TXT
echo END >> lsupport/PICTLIST-forRegistering.TXT
## END OF VARIANCE
cat lsupport/PICTLIST-forRegistering.TXT		 === 8. Clean directory ===
{{{
# Clean directory
sh rem_script.b
rm TESTFILES/*
rm nohup.out
}}}
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=== 9. Complete procedure ===

{{{
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How to Register Images - Batch V0

Description

This block batch registers images contained in lsupport/PICTLIST.TXT.

Assumptions

  • You have invoked a Bourne-Again Shell (bash) on ormacsrv1.lpl.arizona.edu
  • 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.

  • You have completed the processing steps in How to Test Directory Set-Up - ORIG
  • You have populated the orig/ dircteory with test-specific images following the steps in:
    • How to Ingest Images - Test-Specific
    • How to How to ?????????
  • You have populated lsupport/PICTLIST-forRegistering.TXT with the correct subset of images to register

User inputs

  • 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')

Procedure

1. Initial inputs

# 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

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
cp lsupport/PICTLIST-forRegistering.TXT make_script.in
cat make_script.in
cp scripts/make_scriptR.SEED make_scriptR.seed
cat 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

  • (./) how to handle variance within? Needed? 

# Check results
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

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
if [ ! -d /SPC_Test/$testID/log ]; then
  mkdir /SPC_Test/$testID/log
fi
mv typescript /SPC_Test/$testID/log/log-typescript-${blockID}

(Compiled by DL)

CategoryHowTos

How to Register Images - Batch V0 (last edited 2016-02-17 13:58:24 by BMittan)