Re: [galaxy-dev] repeat tag enhancement?
Hi John, thanks for your email and the links. Sorry, I missed the data set collection before. This is really an brilliant feature. In the morning, we tested it and we believe it will be very useful for us. However, we are waiting for further features for the data set collections (view, rename, reorder, expand, join, ...) I voted for several Trello cards mentioned in your presentation. Thanks a lot, Jens ___ 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/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Re: [galaxy-dev] repeat tag enhancement?
Here is the link to the original post/thread: http://dev.list.galaxyproject.org/repeat-tag-enhancement-tt4660660.html ___ 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/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Re: [galaxy-dev] Running a different command based on selection in the tool
Hi Saba, there is a syntax error in the line of the #if. Please add : at the end and report whether the error still occurs. All the best, Jens Von: galaxy-dev-boun...@lists.bx.psu.edu [mailto:galaxy-dev-boun...@lists.bx.psu.edu] Im Auftrag von Saba Sehrish Gesendet: Mittwoch, 19. März 2014 23:07 An: galaxy-dev@lists.bx.psu.edu Betreff: [galaxy-dev] Running a different command based on selection in the tool Hi all, I am trying to write a tool that based on user criteria will run a different script. In the code below, If I select Use_Snapshot, I see the right interface but somehow galaxy tries to execute the #else part and look for m input parameter. The example I have seen in documentation is using the script with same name in both if and else and the number of input arguments is the same as well. Any suggestions/ideas why always #else part gets executed although right interface appears based on user selection. Thanks, Saba command #if $source.source_select==Use_Snapshot cM-snapshot.sh $input $output #else cM.sh $m $b $ns $w $s $z $output #end if /command inputs conditional name=source param name=source_select type=select label=Specify the input option value=Use_SnapshotUse Snapshot/option option value=Set_ValuesSet Values/option /param when value=Use_Snapshot param name=input type=data format=dbm size=100 label=Input Snapshot/ sanitizer sanitize=False/ /when when value=Set_Values param name=m label=Omega_m h^2 type=float value=0.1279 min=0.120 max=0.155/ param name=b label=Omega_b h^2 type=float value=0.0232 min=0.0215 max=0.0235/ param name=ns label=n_s type=float value=0.8629 min=0.85 max=1.05/ param name=w label=wtype=float value=-1.184 min=-1.30 max=-0.70/ param name=s label=sigma_8 type=float value=0.6159 min=0.61 max=0.9/ param name=z label=ztype=float value=1.0 min=0.0 max=1.0/ sanitizer sanitize=False/ /when /conditional /inputs ___ 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/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
[galaxy-dev] cap3 in galaxy
Hi, I was pointed to CAP3 by a colleague who likes to have it included in our local Galaxy instance. Searching for cap3 in the Galaxy repositories I only found the packages package_cap3_3 provided by jjohnson: http://toolshed.g2.bx.psu.edu/repository/preview_tools_in_changeset?repository_id=63e16d726d394a5echangeset_revision=8b91ecadabb5 http://testtoolshed.g2.bx.psu.edu/repository/preview_tools_in_changeset?repository_id=d7fe775c833f5d44changeset_revision=a472ccd208e2 So here's my question: Is there any Galaxy integration of cap3? Best regards, Jens ___ 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/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Re: [galaxy-dev] workflow: default parameters
Hi James, thanks for the short reply. I have created a trello card. Here is the link https://trello.com/c/SRxD991Y/1012-workflow-default-parameters Feel free to vote. Best regards, Jens -Ursprüngliche Nachricht- Von: ja...@taylorlab.org [mailto:ja...@taylorlab.org] Im Auftrag von James Taylor Gesendet: Montag, 22. Juli 2013 19:28 An: Keilwagen, Jens Cc: galaxy-...@bx.psu.edu Betreff: Re: [galaxy-dev] workflow: default parameters Not currently possible, but it shouldn't be too difficult to make work. Please file a Trello card. On Tue, Jul 9, 2013 at 11:36 AM, Keilwagen, Jens jens.keilwa...@jki.bund.de wrote: when building workflows we can choose for each parameter whether to 'set at runtime' or to 'set in advance' (when creating or editing the workflow). We are looking for a possiblity to set a default value that is used (only) for the workflow, i.e., we like to specify a value that might be used by most users, but might be altered by expert users. This value might be different from the default value of the corresponding tool. So far, we did not find any possiblity. -- James Taylor, Assistant Professor, Biology/CS, Emory University ___ 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/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
[galaxy-dev] allow users for specifying the number of CPUs
Hi guys, we are currently trying to integrate CLC Bios short read assembler into our local Galaxy version. So far everything went smoothly. However, the command line tool allows for specifying the number of CPU that should be used for computation. We are wondering, whether it is also possible to enable Galaxy users also to specify the number of CPUs. Thanks for any help. Best regards, Jens ___ 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/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
[galaxy-dev] workflow: default parameters
Hi guys, when building workflows we can choose for each parameter whether to 'set at runtime' or to 'set in advance' (when creating or editing the workflow). We are looking for a possiblity to set a default value that is used (only) for the workflow, i.e., we like to specify a value that might be used by most users, but might be altered by expert users. This value might be different from the default value of the corresponding tool. So far, we did not find any possiblity. Thanks for any help. Best regards, Jens ___ 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/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
[galaxy-dev] dynamically load and run R scripts
Hi guys, I was searching for a possiblity to dynamically load and run R scripts and I found http://dev.list.galaxyproject.org/dynamic-loading-of-tools-tt4138600.html I know that it might be a security issue, but we only have a local instance here. Optimally an R script can be loaded into the history. Subsequently, this script can be execute via tool that takes this script and some parameters and returns the result. Is anything like that out there? Could anyone give me a reference? Thanks a lot, Jens ___ 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/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Re: [galaxy-dev] Internal Server Error during installation of ncbi_blast_plus
Hi Greg, I just updated our instance: hg pull hg update sh manage_db.sh upgrade and checked the current version parent: 9944:cea3ddf6cdda tip Update tag for stable_2013.06.03 Zweig: stable Ãbernehme: 16 unbekannt (clean) Aktualisiere: (aktuell) Subsequently, I tried again and it took a while, but it works. Thank you very much. All the best, Jens -Ursprüngliche Nachricht- Von: Greg Von Kuster [mailto:g...@bx.psu.edu] Gesendet: Dienstag, 4. Juni 2013 15:58 An: Keilwagen, Jens Cc: Galaxy Dev Betreff: Re: AW: [galaxy-dev] Internal Server Error during installation of ncbi_blast_plus Hi Jens, Thanks for the information, but it doesn't help determine what is causing this behavior in your environment. It's strange that you have never installed the ncbi_blast_plus repository (so it is not currently in some error state), and yet you cannot install it. I am not able to reproduce this behavior, so I have no idea of it's cause or how to resolve it. We just completed the latest Galaxy release yesterday, so when it is convenient perhaps you could update your Galaxy environment again, although I don't believe your Galaxy version is the issue either. Sorry to not be of much help here, but this is unusual behavior that has not been seen in the community, so it's unclear how to resolve it. Greg Von Kuster On Jun 4, 2013, at 9:47 AM, Keilwagen, Jens wrote: Hi Greg, Thanks a lot for your email. I hope, I did do not misunderstand something. We are trying to install ncbi_blast_plus from the Galaxy main tool shed. As we did not manage to install ncbi_blast_plus the where clause does not make sense to me. Hence, I omit it. Here is the result. mysql select id, name, owner, mysql installed_changeset_revision,changeset_revision, deleted, mysql status, error_message from tool_shed_repository; +++---+-- ++-+---+---+ | id | name | owner | installed_changeset_revision | changeset_revision | deleted | status | error_message | +++---+-- ++-+---+---+ | 1 | cutadapt | lparsons | 2d6671b10919 | 2d6671b10919 | 0 | Installed | NULL | | 2 | mirdeep2_and_targetspy | nikhil-joshi | 798fe7ba8b5e | 798fe7ba8b5e | 0 | Installed | NULL | | 3 | clustalomega | clustalomega | bc707542e5de | bc707542e5de | 0 | Installed | NULL | | 4 | head_and_tail | xuebing | 00dba791c4a2 | 00dba791c4a2 | 0 | Installed | NULL | | 5 | seq_match | xuebing | 3fd777932736 | 3fd777932736 | 0 | Installed | NULL | | 6 | dreme | xuebing | 83fb93488cad | 83fb93488cad | 0 | Installed | NULL | | 7 | velvet_toolsuite | edward-kirton | 4afe13ac23b6 | 4afe13ac23b6 | 0 | Installed | NULL | | 8 | velvet_optimiser | simon-gladman | 43c89d82a7d3 | 43c89d82a7d3 | 0 | Installed | NULL | | 9 | roche454_toolsuite | edward-kirton | 368a6ebebdde | 368a6ebebdde | 0 | Installed | NULL | | 10 | mira_assembler | peterjc | 4266cccbb45a | 4266cccbb45a | 0 | Installed | NULL | | 11 | abyss_toolsuite| edward-kirton | 92636934a189 | 92636934a189 | 0 | Installed | NULL | | 12 | bwa_wrappers | devteam | 150b3fe44caa | 150b3fe44caa | 0 | Installed | NULL | | 13 | mafft | dereeper | d7a735d3625e | d7a735d3625e | 0 | Installed | NULL | | 14 | blast_datatypes| devteam | b3a3ba0c1d47 | b3a3ba0c1d47 | 0 | Installed | NULL | | 15 | blast | edward-kirton | f3ac34855f5e | f3ac34855f5e | 0 | Installed | NULL | | 16 | cdf_plot | xuebing | 900fd0a7428d | 900fd0a7428d | 0 | Installed | NULL | | 17 | plot_distribution | ynewton | f180c4ef9128 | f180c4ef9128 | 0 | Installed | NULL | +++---+-- ++-+---+---+ Does this help? Best regards, Jens -Ursprüngliche Nachricht- Von: Greg Von Kuster [mailto:g...@bx.psu.edu] Gesendet: Dienstag, 4. Juni 2013 15:29 An: Keilwagen, Jens Cc: Galaxy Dev Betreff: Re: [galaxy-dev] Internal Server Error during installation of ncbi_blast_plus Hello Jens. What is the name of the repository you are trying to install from the tool shed? Can you run the following sql
Re: [galaxy-dev] Internal Server Error during installation of ncbi_blast_plus
Hi Greg, Thanks a lot for your email. I hope, I did do not misunderstand something. We are trying to install ncbi_blast_plus from the Galaxy main tool shed. As we did not manage to install ncbi_blast_plus the where clause does not make sense to me. Hence, I omit it. Here is the result. mysql select id, name, owner, mysql installed_changeset_revision,changeset_revision, deleted, status, mysql error_message from tool_shed_repository; +++---+--++-+---+---+ | id | name | owner | installed_changeset_revision | changeset_revision | deleted | status| error_message | +++---+--++-+---+---+ | 1 | cutadapt | lparsons | 2d6671b10919 | 2d6671b10919 | 0 | Installed | NULL | | 2 | mirdeep2_and_targetspy | nikhil-joshi | 798fe7ba8b5e | 798fe7ba8b5e | 0 | Installed | NULL | | 3 | clustalomega | clustalomega | bc707542e5de | bc707542e5de | 0 | Installed | NULL | | 4 | head_and_tail | xuebing | 00dba791c4a2 | 00dba791c4a2 | 0 | Installed | NULL | | 5 | seq_match | xuebing | 3fd777932736 | 3fd777932736 | 0 | Installed | NULL | | 6 | dreme | xuebing | 83fb93488cad | 83fb93488cad | 0 | Installed | NULL | | 7 | velvet_toolsuite | edward-kirton | 4afe13ac23b6 | 4afe13ac23b6 | 0 | Installed | NULL | | 8 | velvet_optimiser | simon-gladman | 43c89d82a7d3 | 43c89d82a7d3 | 0 | Installed | NULL | | 9 | roche454_toolsuite | edward-kirton | 368a6ebebdde | 368a6ebebdde | 0 | Installed | NULL | | 10 | mira_assembler | peterjc | 4266cccbb45a | 4266cccbb45a | 0 | Installed | NULL | | 11 | abyss_toolsuite| edward-kirton | 92636934a189 | 92636934a189 | 0 | Installed | NULL | | 12 | bwa_wrappers | devteam | 150b3fe44caa | 150b3fe44caa | 0 | Installed | NULL | | 13 | mafft | dereeper | d7a735d3625e | d7a735d3625e | 0 | Installed | NULL | | 14 | blast_datatypes| devteam | b3a3ba0c1d47 | b3a3ba0c1d47 | 0 | Installed | NULL | | 15 | blast | edward-kirton | f3ac34855f5e | f3ac34855f5e | 0 | Installed | NULL | | 16 | cdf_plot | xuebing | 900fd0a7428d | 900fd0a7428d | 0 | Installed | NULL | | 17 | plot_distribution | ynewton | f180c4ef9128 | f180c4ef9128 | 0 | Installed | NULL | +++---+--++-+---+---+ Does this help? Best regards, Jens -Ursprüngliche Nachricht- Von: Greg Von Kuster [mailto:g...@bx.psu.edu] Gesendet: Dienstag, 4. Juni 2013 15:29 An: Keilwagen, Jens Cc: Galaxy Dev Betreff: Re: [galaxy-dev] Internal Server Error during installation of ncbi_blast_plus Hello Jens. What is the name of the repository you are trying to install from the tool shed? Can you run the following sql in your database and reply back with the results? select id, name, owner, installed_changeset_revision, changeset_revision, deleted, status, error_message from tool_shed_repository where name = 'the name of the repo you are trying to install'; Thanks, Greg Von Kuster On May 31, 2013, at 1:51 AM, Keilwagen, Jens wrote: Hi Greg, thanks for your comment. Some days ago, I updated Galaxy following: http://wiki.galaxyproject.org/News/2013_04_08_Galaxy_Security_Release Here is what hg sum said parent: 9292:2cc8d10988e0 security_2013.04.08 controllers/history: use get_history in switch_to_history Zweig: stable Übernehme: 10 unbekannt (clean) Aktualisiere: 11 neue Änderungssätze (Aktualisierung) (Sorry for the German terms.) I then updated Galaxy by hg update obtaining: parent: 9320:47ddf167c9f1 tip Use Galaxy's ErrorMiddleware since Paste's doesn't return start_response. Fixes downloading tarballs from the Tool Shed when use_debug = false. Zweig: stable Übernehme: 10 unbekannt (clean) Aktualisiere: (aktuell) I then restarted Galaxy and tried to install again, but it fails again. Even trying for a second time doesn't change the behaviour. Here
Re: [galaxy-dev] Internal Server Error during installation of ncbi_blast_plus
', '9dabbfd73c8a')],
'tool_shed_url=http://toolshed.g2.bx.psu.edu/repository_ids=1d92ebdf7e8d466cchangeset_revisions=9dabbfd73c8a')
paste.recursive.forward: paste.recursive.Forwarder from /
paste.recursive.include: paste.recursive.Includer from /
paste.recursive.include_app_iter: paste.recursive.IncluderAppIter from /
paste.recursive.script_name: ''
paste.throw_errors: True
request_id: '964a9788c9b511e2bb080050568d0b1f'
webob._parsed_query_vars: (MultiDict([('tool_shed_url',
'http://toolshed.g2.bx.psu.edu/'), ('repository_ids', '1d92ebdf7e8d466c'),
('changeset_revisions', '9dabbfd73c8a')]),
'tool_shed_url=http://toolshed.g2.bx.psu.edu/repository_ids=1d92ebdf7e8d466cchangeset_revisions=9dabbfd73c8a')
wsgi process: 'Multithreaded'
I would be graetful for any comments.
Best regards, Jens
-Ursprüngliche Nachricht-
Von: Greg Von Kuster [mailto:g...@bx.psu.edu]
Gesendet: Donnerstag, 30. Mai 2013 15:39
An: Keilwagen, Jens
Cc: Galaxy Dev
Betreff: Re: AW: [galaxy-dev] Internal Server Error during installation
of ncbi_blast_plus
Hello Jens,
It looks like your Galaxy instance is fairly old. What version of
Galaxy are you running?
Thanks,
Greg Von Kuster
On May 30, 2013, at 1:49 AM, Keilwagen, Jens wrote:
Hi Greg,
here is what the paster.log says:
172.31.30.183 - - [30/May/2013:07:39:54 +0200] GET
/admin_toolshed/browse_tool_shed?tool_shed_url=http%3A%2F%2Ftoolshed.g2
.bx.psu.edu%2F HTTP/1.0 302 -
http://galaxy.jki.bund.de/admin_toolshed/browse_tool_sheds;
Mozilla/5.0 (Windows NT 6.1; WOW64; rv:21.0) Gecko/20100101
Firefox/21.0
172.31.30.183 - - [30/May/2013:07:40:17 +0200] GET
/admin_toolshed/prepare_for_install?tool_shed_url=http://toolshed.g2.bx
.psu.edu/repository_ids=1d92ebdf7e8d466cchangeset_revisions=9dabbfd73
c8a HTTP/1.0 500 -
http://toolshed.g2.bx.psu.edu/repository/preview_tools_in_changeset?re
pository_id=1d92ebdf7e8d466cchangeset_revision=9dabbfd73c8a
Mozilla/5.0 (Windows NT 6.1; WOW64; rv:21.0) Gecko/20100101
Firefox/21.0
Error - type 'exceptions.ValueError': too many values to unpack
URL:
http://galaxy.jki.bund.de/admin_toolshed/prepare_for_install?tool_shed
_url=http://toolshed.g2.bx.psu.edu/repository_ids=1d92ebdf7e8d466cch
angeset_revisions=9dabbfd73c8a File
'/opt/galaxy/galaxy-
dist/lib/galaxy/web/framework/middleware/error.py'
, line 149 in __call__ app_iter = self.application(environ,
sr_checker) File
'/opt/galaxy/galaxy-dist/eggs/Paste-1.7.5.1-
py2.6.egg/paste/recursive.
py', line 84 in __call__ return self.application(environ,
start_response) File
'/opt/galaxy/galaxy-dist/eggs/Paste-1.7.5.1-
py2.6.egg/paste/httpexcept
ions.py', line 633 in __call__ return self.application(environ,
start_response) File
'/opt/galaxy/galaxy-dist/lib/galaxy/web/framework/base.py', line 128
in __call__ return self.handle_request( environ, start_response )
File '/opt/galaxy/galaxy-dist/lib/galaxy/web/framework/base.py', line
184 in handle_request body = method( trans, **kwargs ) File
'/opt/galaxy/galaxy-dist/lib/galaxy/web/framework/__init__.py', line
231 in decorator return func( self, trans, *args, **kwargs ) File
'/opt/galaxy/galaxy-
dist/lib/galaxy/webapps/galaxy/controllers/admin_t
oolshed.py', line 894 in prepare_for_install
common_install_util.get_dependencies_for_repository( trans,
tool_shed_url, repo_info_dict, includes_tool_dependencies ) File
'/opt/galaxy/galaxy-dist/lib/tool_shed/util/common_install_util.py',
line 88 in get_dependencies_for_repository installed_rd, missing_rd
=
get_installed_and_missing_repository_dependencies_for_new_install(
trans, repo_info_tuple ) File
'/opt/galaxy/galaxy-dist/lib/tool_shed/util/common_install_util.py',
line 192 in
get_installed_and_missing_repository_dependencies_for_new_install
tool_shed, name, owner, changeset_revision = rd_tup
ValueError: too many values to unpack
CGI Variables
-
CONTENT_LENGTH: '0'
HTTP_ACCEPT:
'text/html,application/xhtml+xml,application/xml;q=0.9,*/*;q=0.8'
HTTP_ACCEPT_ENCODING: 'gzip, deflate'
HTTP_ACCEPT_LANGUAGE: 'de-de,de;q=0.8,en-us;q=0.5,en;q=0.3'
HTTP_CACHE_CONTROL: 'max-age=0'
HTTP_CONNECTION: 'keep-alive'
HTTP_COOKIE:
'galaxysession=c6ca0ddb55be603a88fa41dbba7680819dc3ac10c92a6efa6da917af
7060700e4360e4afb5987baa'
HTTP_HOST: 'galaxy.jki.bund.de'
HTTP_REFERER:
'http://toolshed.g2.bx.psu.edu/repository/preview_tools_in_changeset?re
pository_id=1d92ebdf7e8d466cchangeset_revision=9dabbfd73c8a'
HTTP_USER_AGENT: 'Mozilla/5.0 (Windows NT 6.1; WOW64; rv:21.0)
Gecko/20100101 Firefox/21.0'
HTTP_VIA: '1.1 proxy.jki.bund.de:8000 (squid/2.7.STABLE9)'
HTTP_X_FORWARDED_FOR: '172.31.30.183'
ORGINAL_REMOTE_ADDR: '172.16.20.52'
PATH_INFO: '/admin_toolshed/prepare_for_install'
QUERY_STRING:
'tool_shed_url=http://toolshed.g2.bx.psu.edu/repository_ids=1d92ebdf7e
Re: [galaxy-dev] Internal Server Error during installation of ncbi_blast_plus
/'), ('repository_ids', '1d92ebdf7e8d466c'),
('changeset_revisions', '9dabbfd73c8a')]),
'tool_shed_url=http://toolshed.g2.bx.psu.edu/repository_ids=1d92ebdf7e8d466cchangeset_revisions=9dabbfd73c8a')
wsgi process: 'Multithreaded'
However, installing other tools from the tool shed was no problem so far.
Best regards, Jens
-Ursprüngliche Nachricht-
Von: Greg Von Kuster [mailto:g...@bx.psu.edu]
Gesendet: Mittwoch, 29. Mai 2013 16:45
An: Keilwagen, Jens
Cc: Galaxy Dev
Betreff: Re: [galaxy-dev] Internal Server Error during installation of
ncbi_blast_plus
Hello Jens,
What does your Galaxy paster log show that is related to the internal
server error?
Greg Von Kuster
On May 29, 2013, at 10:13 AM, Peter Cock wrote:
On Wed, May 29, 2013 at 8:33 AM, Keilwagen, Jens
jens.keilwa...@jki.bund.de wrote:
Hi guys,
we are currently estalishing our own local Galaxy instance. However,
when we try to install Repository 'ncbi_blast_plus' from the
Galaxy
main tool shed via the admin pages, we obtain the following error
Internal Server Error
Galaxy was unable to sucessfully complete your request
An error occurred.
This may be an intermittent problem due to load or other
unpredictable factors, reloading the page may address the problem.
The error has been logged to our team.
We tried to install on three different days. Hence, we believe there
might be another problem.
Thanks for any help.
Best regards, Jens
Hi Jens,
The Galaxy team should be able to ask some more targeted questions,
but how far did the process get? Were you asked about the
dependencies
(e.g. the blast_dataypes repository or the underlying BLAST+
binaries)?
Peter
P.S. What kind of system are you using? 64 bit Linux? Mac OS X?
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Re: [galaxy-dev] Internal Server Error during installation of ncbi_blast_plus
Hi Peter, thanks for your email. Regarding you questions The Galaxy team should be able to ask some more targeted questions, but how far did the process get? I get this errorimmediately after clicking on Install to Galaxy. Were you asked about the dependencies (e.g. the blast_dataypes repository or the underlying BLAST+ binaries)? No, but blast_datatypes is already installed. P.S. What kind of system are you using? 64 bit Linux? Mac OS X? galaxy-dist$ more /proc/version Linux version 2.6.32-5-amd64 (Debian 2.6.32-48squeeze1) (da...@debian.org) (gcc version 4.3.5 (Debian 4.3.5-4) ) #1 SMP Mon Feb 2 5 00:26:11 UTC 2013 ___ 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/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
[galaxy-dev] user-specific tool panel
Hi guys, I'm wondering whether it is possible to have user-specific tool panels after logging in. This way users could customize the tool panel for instance by increasing the visibility of their (user-specific) favorites ... This would be a wonderful feature. However searching in the documentation and the mailing list, I did not find anything. Hence, it would be great if anybody could give me a hint or if impossible to mark this as a feature request. Thanks for any help. Jens ___ 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/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
