Common variables used

• $outdir is the directory that contains the disk, session, jobtype, but not the runname: For example: /data/appion/10dec16a/extract

• $rundir = $outdir + runname, For example: /data/appion/10dec16a/extract/dogrun1 note: appion python code only accepts $rundir

• $description

• $commit

• $command

• $sessiondata'

• $sessionid vs. $sessionId vs. $expid vs. $expId

• $apix vs. $pixelsize

• $box vs. $boxsize

variable dump

cd ~/myami/myamiweb/processing
cat *.php | grep '$[A-Za-z]' | sed 's/$_[A-Za-z]*//' | sed 's/[^$]*($[A-Za-z0-9]*)[^$]*/\1 
/g' | sort | uniq -c | sort -rn | head -50

<# of occurrences> `

1066 $command 
1001 $particle 
 943 $ 
 854 $expId 
 630 $i 
 387 $formAction 
 385 $html 
 366 $javascript 
 349 $outdir 
 337 $projectId 
 327 $runname 
 326 $sessionId 
 299 $extra 
 213 $description 
 200 $graph 
 198 $stackid 
 198 $sessioninfo 
 186 $apix 
 180 $sessiondata 
 162 $display 
 160 $title 
 158 $templatetable 
 157 $user 
 136 $line 
 131 $javafunctions 
 127 $heading 
 126 $numpart 
 125 $jobinfo 
 117 $errors 
 114 $stackinfo 
 110 $t 
 110 $key 
 109 $s 
 108 $templateinfo 
 101 $sessionpath 
  98 $bin 
  96 $tomogram 
  96 $sub 
  96 $nproc 
  96 $filename 
  94 $stackId 
  91 $headinfo 
  90 $sessionname 
  90 $data 
  89 $j 
  89 $cmd 
  89 $box 
  89 $alignId 
  86 $r