Changes between Version 1 and Version 2 of net.sf.basedb.reggie/notes40


Ignore:
Timestamp:
Nov 30, 2015, 11:49:14 AM (8 years ago)
Author:
Nicklas Nordborg
Comment:

Update installation notes for Reggie 4.0

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  • net.sf.basedb.reggie/notes40

    v1 v2  
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    4 == 1. Updating Reggie ==
     4== 1. Before updating! ==
    55
    66'''Do not update to Reggie 4.0 while there are secondary analysis jobs running! '''
     7
    78This may cause output data files to not be found or linked to the incorrect location.
     9
     10'''Do not update to Reggie 4.0 if there are any flow cells waiting in the following wizards: '''
     11 * Register clustering
     12 * Register sequencing started
     13 * Register sequencing ended
     14
     15This may cause a flow cell to be caught in a state where it doesn't appear in any wizard for further processing.
     16
     17== 2. Updating Reggie and configure an external archive ==
    818
    919 1. Extract the new `reggie.jar` file and put it in the usual location.
    … …  
    1323 5. It will still complain about the `ExternalArchive` file server. Configure it so that it can access the location specified in `<external-archive>`.
    1424
    15 == 2. Move secondary analysis data files that belong to external samples ==
     25== 3. Move secondary analysis data files that belong to external samples ==
    1626
    1727 1. Log in to the file server containing secondary analysis data files.
    … …  
    1929 3. Log in to BASE.
    2030 4. Move all directories inside `/home/SCANB/SecondayAnalysis` belonging to external samples to `/home/External/SecondaryAnalysis`. This should be relatively simple to do:
    21    * Select all directories that have names that are not `11`, `22`, etc. or `Stratagene`.
    22    * Then, use the `Move -> To another directory` function to move all selected directories to `/home/External/SecondaryAnalysis`.
    23  5. Change the `FileServer` item on all files inside the `/home/External/SecondaryAnalysis` to `ExternalArchive`. This can be done editing each file item manually, but if there are a lot files it may be better to use a batch importer.
     31   * Select all directories that have names that are not starting with `11`, `22`, ..., `99` or `Stratagene`.
     32   * Use the `Move -> To another directory` function to move all selected directories to `/home/External/SecondaryAnalysis`.
     33 5. Change the `FileServer` item on all files inside the `/home/External/SecondaryAnalysis` to `ExternalArchive`. This can be done by editing each file item manually, but if there are a lot files it may be better to use a batch importer.
    2434   * Log in to the file server
    2535   * Cd to the `<external-archive>` folder