SLIMS Administrative Help
Probably the most important page to the administrative user is the Create Run page. On this page, the administrative user enters most of the information that will be stored for a run. The page starts out by requesting information that is specific to each lane of the run. 'Create Run- Figure 1' below describes each field pretty well. The dropdown select boxes are automatically populated from the list of groups from the "Manage Groups" page. By assigning a lane to a certain group, only those users with the 'view-run' permission for that group are allowed access to that run's information.
As for the Organism select box, that is populated from the organisms which are entered on the "Manage Oraganisms" page which is seen and described in the below image. Note that all genome files and directories should be placed under the same directory, and the GENOME_FILE and GENOME_DIR fields should be provided with paths relative to that directory. For example, if all organism files and directories are under the directory:
/data/organisms/and the human directory and file are:
"/data/organisms/UCSC_human" and "/data/organisms/UCSC_human/chr1.fa"
then you should enter:
for GENOME_DIR and GENOME_DIR respectively. If the locations of these files are changed, the user should click on the "Edit" link next to the organism and update the paths.
The remainder of the Create Run form is described by the below image. Note that the Run Directory should be only the name of the directory created by the Solexa run of the form "YYMMDD_machinename_XXXX". This folder is what SLIMS will use to identify associated data for the run.
Copyright 2013, UCD Genome Center, 