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← Revision 26 as of 2019-11-08 16:47:21 ⇥
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| Deletions are marked like this. | Additions are marked like this. |
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| This block batch registers images. | This block batch registers images. Each time you run a batch run of run_script.b (typically would have a different make_scriptR.seed), then run [[blockFinish]] to log the results. |
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| == Assumptions == * You have invoked a Bourne-Again Shell (bash) * You have completed the processing steps in Block 1 - Setup Directory * You have populated the working directory with new images following the steps in: * [[Block 2 - Ingest v2]] |
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| === 2. Set-up === | === Set-up === For script, set the ID |
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| Ensure make_scriptR.seed is linked to the script you want to run. | ID=312 |
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| === 3. Set-up batch register files === You can populate make_script.in with the images to Register, or if you used the previous block, you can use the below commands. |
Ensure make_scriptR.seed is linked to the script you want to run. For starters, you can use one of the default ones. If needed, you can craft something specific and place it in lsupport. |
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| # Create a list of images that need to be processed. grep -v -e SUMFILES -e NOMINALS ../log/step1-2/output.txt | cut -c 1-12 > tmp cat tmp | sed 's/^/ /' > make_script.in echo END >> make_script.in |
relink.sh support/register-basic01.seed make_scriptR.seed relink.sh script/make_scriptR_02.seed make_scriptR.seed ls -l make_scriptR.seed | tee -a notes }}} === Set-up batch register files === Replace [[make_script.in]] with a list of images that you want to use. It is important that the first character is blank and the file is terminated with an "END" {{{ # Create a list of images that need to be processed. echo working with dataset active.$ID | tee -a notes echo y | cp lsupport/active.$ID make_script.in echo END >> make_script.in wc -l make_script.in | tee -a notes |
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| === 4. Batch register images === | === Batch register images === Build the scripts. We use nohup to ensure that if the login window is lost, the process still runs. |
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| # Build the scripts. make_scriptR # Run the scripts nohup sh run_script.b |
make_scriptR nohup sh run_script.b |
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| === 5. Monitor progress === | === Monitor progress === |
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| # Monitor progress ls -l *.INN *.OOT |
ls *.INN | wc ls *.OOT | wc |
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| === 6. Check results === | === Check results === This gives stats to help you see which things to work. |
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| support/registerEval.sh mkdir ../log/step1-3 mv *INN *OOT eval* ../log/step1-3 |
registerEval.sh wc eval/evalGood.txt eval/evalBad.txt | tee -a notes |
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| === 7. Fix unregistered images === | If you so desire, especially early on, make R/B images to see the quality of the fit {{{ evalReg.sh make_script.in }}} === Fix unregistered images === |
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| === 8. Clean directory === | === Rerun === If evalBad.txt is large, then you can tweak [[make_scriptR.seed]] and rerun on the bad list |
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| # Clean directory sh rem_script.b rm TESTFILES/* rm nohup.out |
cut -c 1-12 evalBad.txt | sed -e "s/^/ /" > make_script.in echo "END" >> make_script.in relink ________.seed make_scriptR.seed echo "Rerunning with evalBad.txt" >> notes ls -l make_scriptR.seed >> notes make_scriptR nohup sh run_script.b }}} === Finish the Block === {{{ echo 2 | blockFinish ps$ID |
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| ''(Compiled by JRW)'' CategoryHowTos |
''(Compiled by EEP)'' |
Block 3 - Register V2
Description
This block batch registers images. Each time you run a batch run of run_script.b (typically would have a different make_scriptR.seed), then run blockFinish to log the results.
Procedure
Set-up
For script, set the ID
ID=312
Ensure make_scriptR.seed is linked to the script you want to run. For starters, you can use one of the default ones. If needed, you can craft something specific and place it in lsupport.
relink.sh support/register-basic01.seed make_scriptR.seed relink.sh script/make_scriptR_02.seed make_scriptR.seed ls -l make_scriptR.seed | tee -a notes
Set-up batch register files
Replace make_script.in with a list of images that you want to use. It is important that the first character is blank and the file is terminated with an "END"
# Create a list of images that need to be processed. echo working with dataset active.$ID | tee -a notes echo y | cp lsupport/active.$ID make_script.in echo END >> make_script.in wc -l make_script.in | tee -a notes
Batch register images
Build the scripts. We use nohup to ensure that if the login window is lost, the process still runs.
make_scriptR nohup sh run_script.b
Monitor progress
ls *.INN | wc ls *.OOT | wc
Check results
This gives stats to help you see which things to work.
registerEval.sh wc eval/evalGood.txt eval/evalBad.txt | tee -a notes
If you so desire, especially early on, make R/B images to see the quality of the fit
evalReg.sh make_script.in
Fix unregistered images
# Fix unregistered images .......
Rerun
If evalBad.txt is large, then you can tweak make_scriptR.seed and rerun on the bad list
cut -c 1-12 evalBad.txt | sed -e "s/^/ /" > make_script.in echo "END" >> make_script.in relink ________.seed make_scriptR.seed echo "Rerunning with evalBad.txt" >> notes ls -l make_scriptR.seed >> notes make_scriptR nohup sh run_script.b
Finish the Block
echo 2 | blockFinish ps$ID
(Compiled by EEP)