| |
Run Folder Requirements
1. Do Not Use Spaces in Run Folder Names
2. Rename Run Folder to rf Sample Sheet Number, Example: rf456 or rf456-1-19-3
3. Transfer the correct Run Folder.
1. Before transfering a Run Folder into dnaLIMS, replace all spaces in the Run Folder
name with Hyphens.
2. In some cases, the sequencer creates a top level Run Folder which contains the Run,
Log, Gel, and another embedded Run Folder that contains the Sequence and Trace files.
If it is desired to have the Run, Log, and Gel files archived on the UNIX computer,
click and drag the Run, Log, and Gel files into the embedded Run Folder. Then transfer
the Run Folder containing all the files.
If the Run, Log, and Gel files will not be archived on the UNIX computer, select the embeded
Run Folder for file transfer.
Where and what is TO-UNIX?
TO-UNIX is a directory within the dna directory.
The dna directory path is defined when the system is configured
with the Configure System and Enable Applications hyperlink.
The TO-UNIX directory provides a single point holding location for the
Run Folder files. This is the ONLY location dnaLIMS looks at to
find Run Folders. If the Run Folders are copied to any other location
the software will not find the Run Folder.
Out-of-Pool
When creating a Gel, the sequencing pool is copied to a temporary file
for gel creation processing. If the user interrupts or stops creating
the gel (system crash, quit the browser, local pc crash), the temporary
file is not associated with the gel creation process anymore and is
considered out-of-pool.
Use the Recycle Gel hyperlink to return the out-of-pool temporary file
and its contents back into the sequencing pool.
Fasta Format
The fasta format is composed of three parts: right chevron, information header, and
the sequence. Example:
>405-12 1234 ....additional infomation.....
ATCG....more sequence data....
Dictionary Sorts
Dictionary sorts, sort the list alphabetically based upon the ASCII ordering.
It does not sort numbers. A list of sample names that includes trailing digits
will not be sorted in assending order if the trailing digit is greater than 9.
For example: sample1 through sample12 will be sorted:
sample1, sample10, sample11, sample12, sample2, sample3.....
A numeric sort of the sample name field will sort the above example in assending
order, i.e. 1,2,3,4,5,6,7,8,9,10,11,12.
|
