## page was renamed from Block 3 - Register
= 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
}}}
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''(Compiled by EEP)''