Excellent -- that works. Thanks, guys. Is it reasonable to assume that people will want to attach their file if they specify the file name? If so, then it would make sense to make the "Data Directory" and "Data File Type" parameters mandatory in the import wizard if someone has specified a file name. But perhaps you want to just retain the option for people to import a minimal, "skeletal" raw bioassay without any of the above specified (in that case a note in the documentation would be good).
The Raw Data Type also needs to be made mandatory as the import will fail without it (that seems to go for all cases, file supplied or not). Cheers Micha ================================== Dr Micha M Bayer Bioinformatics Specialist Genetics Programme The Scottish Crop Research Institute Invergowrie Dundee DD2 5DA Scotland, UK Telephone +44(0)1382 562731 ext. 2309 Fax +44(0)1382 562426 http://www.scri.ac.uk/staff/michabayer ================================== > -----Original Message----- > From: Nicklas Nordborg [mailto:[EMAIL PROTECTED] > Sent: 21 November 2008 19:33 > To: BASE ML > Subject: Re: [base] problem attaching files to raw bioassays using the > batch importer -- BASE 2.8.4 > > Jari Häkkinen wrote: > > I have not encountered any problems with attaching files earlier. I > > decided to play around with partially filled import files. I > succeeded > > in creating a file that fails to attach files even though the > importer > > reports success. BASE 2.8.4 and my 2.9pre test version both fails but > > the resolution of the problem is only tested on my 2.9pre test > machine. > > > > Lets go, I am simply using three columns > > > > Name Platform File > > A affymetrix A.cel > > B affymetrix B.cel > > > > with the CEL files properly uploaded. A and B raw bioassays are > > successfully created as Affymetrix data. The file type is set to 'CEL > > file' but no file was attached. Note, I did not specify type, but > when a > > Data file type column was added > > > > Name Platform File Data file type > > A affymetrix A.cel CEL file > > B affymetrix B.cel CEL file > > > > things work. Rerunning the import ... voila the raw bioassays where > > updated with assigned files. I decided to start from scratch with a > file > > like > > > > Name Platform File Data file type > > C affymetrix A.cel CEL file > > D affymetrix B.cel CEL file > > > > and two raw bioassays were succesfully created with file attached! > > This is how it is expected to work. You need one column with the file > type and one column with the file name. It's because some platform have > multiple data files, so the importer needs to know which file that > should go where. > > /Nicklas > > > ----------------------------------------------------------------------- > -- > This SF.Net email is sponsored by the Moblin Your Move Developer's > challenge > Build the coolest Linux based applications with Moblin SDK & win great > prizes > Grand prize is a trip for two to an Open Source event anywhere in the > world > http://moblin-contest.org/redirect.php?banner_id=100&url=/ > _______________________________________________ > The BASE general discussion mailing list > basedb-users@lists.sourceforge.net > unsubscribe: send a mail with subject "unsubscribe" to > [EMAIL PROTECTED] > > ______________________________________________________________________ > This email has been scanned by the MessageLabs Email Security System. > For more information please visit http://www.messagelabs.com/email > ______________________________________________________________________ ______________________________________________________________________ SCRI, Invergowrie, Dundee, DD2 5DA. The Scottish Crop Research Institute is a charitable company limited by guarantee. Registered in Scotland No: SC 29367. Recognised by the Inland Revenue as a Scottish Charity No: SC 006662. DISCLAIMER: This email is from the Scottish Crop Research Institute, but the views expressed by the sender are not necessarily the views of SCRI and its subsidiaries. This email and any files transmitted with it are confidential to the intended recipient at the e-mail address to which it has been addressed. It may not be disclosed or used by any other than that addressee. If you are not the intended recipient you are requested to preserve this confidentiality and you must not use, disclose, copy, print or rely on this e-mail in any way. Please notify [EMAIL PROTECTED] quoting the name of the sender and delete the email from your system. Although SCRI has taken reasonable precautions to ensure no viruses are present in this email, neither the Institute nor the sender accepts any responsibility for any viruses, and it is your responsibility to scan the email and the attachments (if any). ______________________________________________________________________ ------------------------------------------------------------------------- This SF.Net email is sponsored by the Moblin Your Move Developer's challenge Build the coolest Linux based applications with Moblin SDK & win great prizes Grand prize is a trip for two to an Open Source event anywhere in the world http://moblin-contest.org/redirect.php?banner_id=100&url=/ _______________________________________________ The BASE general discussion mailing list basedb-users@lists.sourceforge.net unsubscribe: send a mail with subject "unsubscribe" to [EMAIL PROTECTED]
