Developers guide » History » Version 13
Amber Herold, 05/03/2011 02:31 PM
| 1 | 1 | Amber Herold | h1. Developers guide |
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| 3 | 7 | Amber Herold | Proposed content: |
| 4 | # Development Tools |
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| 5 | ## Redmine |
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| 6 | ## Eclipse |
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| 7 | ## SVN |
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| 8 | # System Overview |
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| 9 | ## Leginon |
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| 10 | ### Scope |
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| 11 | ### Windows Machine |
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| 12 | ## Appion |
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| 13 | ### Web Parts - web server |
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| 14 | ### Python Parts - processing server |
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| 15 | ### 3rd party apps |
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| 16 | ## Clusters |
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| 17 | # Installing Appion for development |
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| 18 | # Myami Code Tree |
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| 19 | # Running the code from your sandbox |
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| 20 | # Languages and Technology |
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| 21 | ## html, css, PHP, Python, Javascript, mySQL |
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| 22 | 12 | Amber Herold | ## [[Coding standards|best practices for these]] |
| 23 | 7 | Amber Herold | # Adding a new program to the pipeline |
| 24 | ## python parts |
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| 25 | ## Web Parts |
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| 26 | ### launch page |
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| 27 | #### parameter checking |
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| 28 | ### reporting pages |
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| 29 | ## Database Parts |
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| 30 | ### python side |
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| 31 | ### PHP side |
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| 32 | # Testing |
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| 33 | 13 | Amber Herold | # [[Error Handling]] |
| 34 | 9 | Amber Herold | # Issue reporting and life-cycle |
| 35 | # Checking your code into the main trunk |
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| 36 | 10 | Amber Herold | # Appion/Leginon Release Versioning |
| 37 | 7 | Amber Herold | # Adding Documentation |
| 38 | 11 | Amber Herold | # Adding pop-up Help |
| 39 | 8 | Amber Herold | # Where to find help |
| 40 | 7 | Amber Herold | |
| 41 | 1 | Amber Herold | h2. Common variables used |
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| 46 | 3 | Amber Herold | * $outdir is the directory that contains the disk, session, jobtype, but not the runname: For example: /data/appion/10dec16a/extract |
| 47 | 1 | Amber Herold | |
| 48 | 3 | Amber Herold | * $rundir = $outdir + runname, For example: /data/appion/10dec16a/extract/dogrun1 |
| 49 | 1 | Amber Herold | note: appion python code only accepts $rundir |
| 50 | |||
| 51 | * $description |
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| 52 | |||
| 53 | * $commit |
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| 54 | |||
| 55 | * $command |
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| 56 | |||
| 57 | * $sessiondata' |
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| 58 | |||
| 59 | * $sessionid vs. $sessionId vs. $expid vs. $expId |
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| 60 | |||
| 61 | * $apix vs. $pixelsize |
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| 62 | |||
| 63 | * $box vs. $boxsize |
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| 64 | 4 | Neil Voss | |
| 65 | h2. variable dump |
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| 66 | |||
| 67 | <pre> |
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| 68 | cd ~/myami/myamiweb/processing |
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| 69 | cat *.php | grep '\$[A-Za-z]' | sed 's/\$_[A-Za-z]*//' | sed 's/[^$]*\(\$[A-Za-z0-9]*\)[^$]*/\1 \ |
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| 70 | /g' | sort | uniq -c | sort -rn | head -50 |
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| 71 | </pre> |
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| 72 | |||
| 73 | <# of occurrences> <variable name> |
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| 74 | <pre> |
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| 75 | 1066 $command |
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| 76 | 1001 $particle |
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| 77 | 943 $ |
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| 78 | 854 $expId |
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| 79 | 630 $i |
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| 80 | 387 $formAction |
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| 81 | 385 $html |
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| 82 | 366 $javascript |
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| 83 | 349 $outdir |
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| 84 | 337 $projectId |
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| 85 | 327 $runname |
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| 86 | 326 $sessionId |
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| 87 | 299 $extra |
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| 88 | 213 $description |
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| 89 | 200 $graph |
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| 90 | 198 $stackid |
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| 91 | 198 $sessioninfo |
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| 92 | 186 $apix |
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| 93 | 180 $sessiondata |
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| 94 | 162 $display |
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| 95 | 160 $title |
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| 96 | 158 $templatetable |
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| 97 | 157 $user |
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| 98 | 136 $line |
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| 99 | 131 $javafunctions |
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| 100 | 127 $heading |
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| 101 | 126 $numpart |
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| 102 | 125 $jobinfo |
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| 103 | 117 $errors |
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| 104 | 114 $stackinfo |
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| 105 | 110 $t |
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| 106 | 110 $key |
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| 107 | 109 $s |
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| 108 | 108 $templateinfo |
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| 109 | 101 $sessionpath |
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| 110 | 98 $bin |
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| 111 | 96 $tomogram |
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| 112 | 96 $sub |
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| 113 | 96 $nproc |
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| 114 | 96 $filename |
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| 115 | 94 $stackId |
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| 116 | 91 $headinfo |
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| 117 | 90 $sessionname |
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| 118 | 90 $data |
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| 119 | 89 $j |
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| 120 | 89 $cmd |
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| 121 | 89 $box |
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| 122 | 89 $alignId |
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| 123 | 86 $r |
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| 124 | </pre> |
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| 125 | 5 | Amber Herold | |
| 126 | 6 | Amber Herold | h3. [[Appion Testing|Automated testing]] |
| 127 | 1 | Amber Herold | |
| 128 | 6 | Amber Herold | |
| 129 | h3. [[Using basicReport.inc]] for PHP report pages |