Re: [galaxy-dev] Could anyone body tell me why our C program do not work in galaxy
2011/4/25 liyanhui607 liyanhui...@163.com: Thank you very much! After I have added it to the path, it can work now. Best Wishes! Yan-Hui Li Oh good. Peter P.S. Please keep the mailing list on replies. ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
Re: [galaxy-dev] DB access and passowrd field
Hello Alex, If you want to keep your primary account name private (that is all users would see in a shared link to a history or page), then the best suggestion is to create another account that you use for publication purposes. Hopefully this helps, Best, Jen Galaxy team On 3/19/11 2:22 PM, Bossers, Alex wrote: Hi All, I have some tools that generate some tabular output. The next step is to aggregate the data for some filtering and analysis. In my view the best way to do by using a DB (MySQL in my case). Tools and cmd line wrappers can easily connect to this DB (another database than galaxy is using of course) when providing the details for access like address:port, username and password. Is there any way to embed a text field for a galaxy tool that is of type password or blinded? Don't want to share user specific login details when sharing histories or galaxy pages.Or is this a bad thing to pursue anyway? Thanks for any directions. Alex ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ -- Jennifer Jackson http://usegalaxy.org http://galaxyproject.org ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
Re: [galaxy-dev] MarkupSafe egg cannot be fetched
Thanks, fixed on trunk On Sat, Apr 23, 2011 at 7:05 PM, Edward Kirton eskir...@lbl.gov wrote: hello, after pulling the latest changes from galaxy-central, i get the following error: WARNING:galaxy.eggs:Warning: MarkupSafe (a dependent egg of Mako) cannot be fetched $ python scripts/fetch_eggs.py Warning: MarkupSafe (a dependent egg of Mako) cannot be fetched ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
[galaxy-dev] Question on finding external_filename and _extra_files_path from psql DB.
Dear Galaxy Team, As a part of in-house automated cleaning of data set from our production galaxy service, I am finding difficulty to get the galaxy assigned file name (galaxy-root/database/001/dataset_001.dat) for each data set from the corresponding database. We are using PostgreSQL and when I queried through the table name called 'dataset', couldn't figure out the values for external_filename or _extra_files_path. For example: select * from dataset order by id DESC limit 10; id |create_time |update_time | state | deleted | purged | purgable | external_filename | _extra_files_path | file_size 70805 | 2011-04-22 20:49:55.319709 | 2011-04-22 20:50:26.643807 | ok | f | f | t| | | 421593 Could you please let me know where I can locate the file name from other tables or do I need to set up any configuration. Thanks in advance, Vipin Friedrich Miescher Laboratory of the Max Planck Society Spemannstrasse 39, 72076 Tuebingen, Germany ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
Re: [galaxy-dev] substitute or replace a value?
Hello David, There are tools to select data based on defined attributes or to perform calculations on existing data (Text Manipulation, Filter and Sort), but as such no direct user-defined substitution tools. Very sorry for any inconvenience, Best, Jen Galaxy team On 2/23/11 9:26 AM, David Hoover wrote: Is there a tool for doing a global or column-based substitution in a text or tabular file? For example, replace all instances of the number 2 in a column to a number 1? David Hoover Helix Systems Staff http://helix.nih.gov ___ To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ -- Jennifer Jackson http://usegalaxy.org http://galaxyproject.org ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
