All Entries On Batch

A total of 6 entries were found. Click on the titles to read the posts.

• Search String in multiple files (2011-06-05 - Geert Vandeweyer)
  

  The following program is a standard tool for me when searching existing code for specific snippets I need and know I have, just not where i have them... 

   

  Place the progr...

• Install CPAN modules only if not yet present (2011-06-16 - Geert Vandeweyer)
  

  I needed a way to check if a certain CPAN module is present on the system/path, before installing the module again. This way I wanted to prevent that newer versions of mdoles were installed by an i...

• Batch Workflow starting using the Galaxy API : Practical Example (2012-11-02 - Geert Vandeweyer)
  

  Galaxy is a very powerfull interface to the analysis of Next-Generation-Sequencing data. On the other hand, it has some drawbacks. On of the major ones is the inability (for now) to run workflows o...

• Retrieve large batches of rows from mysql (2014-10-28 - Geert Vandeweyer)
  

  The following snippits are some approaches for rapid high performance fetching of vast amounts of rows from a mysql database. All of them should reduce the load on the mysql server and increase the...

• Replace all symlinks by the original file (2018-03-02 - Geert Vandeweyer)
  

  This is a quick command to replace a folder with symlinks by the target files. The original files are not removed. 

   

   

• Running Cromwell on AWS/Batch (2018-11-21 - Geert Vandeweyer)
  

  Cromwell is one of the widely used workflow managers used in bioinformatics to run NGS analysis pipelines. Based on the WDL workflow language, it supports runnings tasks as regular scripts or as co...