Biomolecular Resource Facility
dnaLIMS Guidelines
The
dnaLIMS system is the
new Laboratory Information Management System for the DNA sequencing
service.
Illustration of DNALims login screen
Setting up a login account
- Follow the hyperlink to 'Create login account for dnaLIMS'
and set up a login id and password for yourself. Please ensure that
you complete ALL the required information. Failure to set up your
login correctly will result in delays to processing your accounts.
Select the 'Validate Table' button and then 'Submit'.
Institution: For ANU users please enter as School/Faculty:
eg JCSMR or RSBS or Bambi etc (we need this to be able to sort entries
by School etc). For outside users please enter as CSIRO or Biotron
etc
Department: please enter your dept. or group: eg DMB or DIG
or MCG, or Dixon etc (for the same reason as above). For CSIRO please
enter your Division.
PI (primary investigator): this is your supervisor ( or yourself
where relevant)
Affiliation: ANU users = on_campus, CSIRO and other unis =
Academic (this is for billing purposes)
Changes can be made using the "Change User Profile"
link.
Submitting samples
(orders
will only be accepted using dnalims)
- Select the 'Login to dnaLIMS' hyperlink – this will
take you to the dnaLIMS User Tools page.
- Click the 'Sequencing Request form' Button, enter number
of samples and 'Submit'.
- Fill in the required details on the DNA Sequencing Request form.
Clicking on the “Learn more” link will provide
extra documentation to assist you in filling out the form.
- It is essential that you enter your account code at the top (CSIRO
and non-ANU users only please enter "invoice" in the account
code box).
- Use the fill/clear/toggle buttons to help fill in the form. Use
the index to enter your sample numbers – for example AB1-10,
enter AB, click on index, key in 1 and it will automatically populate
the Template name boxes with the correct numbering. Sample names
are limited to 15 characters consisting only of letters nad numbers.
Use the drop down options where available, if not relevant enter
your details in the correct box.
- For full service (core prep) users submitting their own primers,
please type in the actual name of your primer (dont just choose
"user") in the relevant boxes. This should correspond
to the name of the primer on the tubes you submit to the Facility.
- If you want your sequence files emailed to you, please check the
email sequence and trace boxes. If you prefer to download the files
yourself see 'Retrieving sequencing files' below.
- Record your order number - make 2 copies of the summary (one for
your records), get one signed and hand this copy in with your samples.
View sequencing requests
- View or delete your sequencing requests by Request or Order number
by clicking on "View or delete a sequencing request".
You can view the length of the queue by choosing the "queue
length" button. Hit Submit after making your choice.
Retrieving sequencing results
- You can access your files via dnaLIMS - simply choose the "Retrieve
sequence result" option, click on your order no.
and hit submit. Follow the instructions to download individual
files or all trace/sequence file in one go. If you download all
files together, they will need to be unzipped (usually done automatically
by your computer or choose a utility to use).
If you dont want files emailed to you and prefer to use the above
option, simply check "no" (default) in the email sequence
or trace boxes on the submission form. This is the method of choice
if you generate large numbers of sequence files.
Conversion of files for Mac users
PC users using Chromas the trace files are readable as you
receive them.
Mac users:
- You will need to download the droplet application Mackintosh
Resource Fork Repair Tool which is found under the 'Support
Tools' link on the User Tools Page of dnaLIMS. Leave this on
your desktop.
- Put all the chromatogram files into a single folder, then drop
the folder onto the Resource fork repair droplet. It will change
ALL of them. It will ONLY change files with .abi and .ab1 file extensions.
Files can now be viewed with Editview.
IF we have problems with the system and need to manually email files
to you, you will need to convert them using ABITyper (please go to
the following to link to download ABITyper:
ftp://ftp.agrf.org.au/ABITyper.sea.hqx)
