Raj,
maybe others have a different view on this but I think just throwing you a
number is quite useless.
It all depends on YOUR data storage strategy/policy.
How long can researchers store/use their data. What are their maxed quota...Is
it backuped elsewhere, how many users. Is it public
Andreas,
export your history to tgz.
then locally import it.
I have to say that we do this for backup purposesbut it is a
pain.exporting takes sometimes ages even for small histories.
I am not sure how well synced your databases and such should be.(unique
identifiers and
Hi John,
Can you please have a look at Neil's question.
Thank you,
-Alex
From: Burdett, Neil (ICT Centre, Herston - RBWH)
Sent: Thursday, 30 May 2013 4:30 PM
To: Khassapov, Alex (CSIRO IMT, Clayton)
Subject: Multi File upload api
Hi Alex,
The file
Unfortunately, updating to the latest code (9320:47ddf167c9f1) does not
solve the problem.
In Trello, this card #584 was posted, mentioning installing compiled
binaries is not yet possible, apparently. This is what I experience I
believe.
(BTW, the search bar at the top of Trello does not
On Thu, May 30, 2013 at 10:30 AM, Joachim Jacob | VIB |
joachim.ja...@vib.be wrote:
Unfortunately, updating to the latest code (9320:47ddf167c9f1) does not
solve the problem.
In Trello, this card #584 was posted, mentioning installing compiled
binaries is not yet possible, apparently. This
On Thu, May 30, 2013 at 10:30 AM, Joachim Jacob | VIB |
joachim.ja...@vib.be wrote:
Unfortunately, updating to the latest code (9320:47ddf167c9f1) does not
solve the problem.
I may be seeing the same issue on the Test Tool Shed, which
suggests a recent regression:
This is for the NCBI BLAST+
Hi Peter,
Yes, but your NCBI-blast executables were always packed in a tar.gz.
The BLAT executable I want to use is just downloadable as such, without
extracting needed. That's where it goes wrong.
Joachim Jacob
Contact details: http://www.bits.vib.be/index.php/about/80-team
On Thu 30
Hi Joachim,
your definition is working fine for me (latest galaxy-central
9895:e3455a092882).
If have uploaded it to this test repository:
http://testtoolshed.g2.bx.psu.edu/view/bgruening/precommit_test
... and was able to install it. blat has no executable flag, so I needed
to add chmod +x
On Thu, May 30, 2013 at 11:06 AM, Björn Grüning
bjoern.gruen...@pharmazie.uni-freiburg.de wrote:
Hi Joachim,
your definition is working fine for me (latest galaxy-central
9895:e3455a092882).
If have uploaded it to this test repository:
Hello all,
I am trying to install BWA , I used the command:
bwa index -a bwtsw /global_data/hg18full.fa and I got only 5 files
insted of 8
The missing files are
- rbwt
- rpac
- .rsa
I didn't recieve any error message while running.
thanks for your help
merav
Hi Peter,
is it also crashing for you locally? I was also able to install the
wrapper successfully. I'm just wondering if the testtoolshed is not
updated or if I have some nice local modifications left, that are worth
a pull request :)
Cheers,
Bjoern
On Thu, May 30, 2013 at 10:30 AM, Joachim
I was also able to install the BLAST+ repository and tool dependency
locally, which suggests that the automated testing environment is
causing this issue. I'll have a look at that and update you.
--Dave B.
On 5/30/13 08:45:27.000, Björn Grüning wrote:
Hi Peter,
is it also crashing for
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
Dear all,
Four days of training in genomics are occurring on our local instance of
Galaxy (27-30 May).
This training session takes place at INRA, Toulouse Auzeville, France,
as part of a collaboration between Sigenae (http://www.sigenae.org/) and
GenoToul bioinformatics platform
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;
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
Dear Galaxy developers,
I hope you could help me with the following issue.
I wish to use galaxy tools in our AMADEUS motif finding software:
http://acgt.cs.tau.ac.il/amadeus/
AMADEUS helps many users who wish to find motifs in their sequences.
AMADEUS has 2 limitations:
1. It can find motifs vs
On Thu, May 30, 2013 at 3:46 PM, Dave Bouvier d...@bx.psu.edu wrote:
Peter,
It turns out the issue was due to an overzealous firewall rule blocking
outgoing FTP connections on the host running the automated tests. I've
opened outgoing FTP and started a test for ncbi_blast_plus.
--Dave B.
Hello, מירב
It looks like the indexing system/format in 'bwa index' has changed
and we haven't updated the wiki to reflect the changes.
The reverse index (which includes the .r* files) are now part of the
forward index. You
should be fine to proceed.
I'll update the wiki to reflect this.
From
Alex, if I am not mistaken you guys are using a fairly old version of
the multiple file dataset code. I think on the server side you would
need to apply the following three changesets to update the library
backend to support the creation of multifile datasets (I guess if you
are doing path pasting
I tracked down this issue to a bug in the workflow export code, and I've fixed
it. The fix will appear on our public server early next week; please let us
know if you're still seeing this error late next week.
Best,
J.
On May 23, 2013, at 9:50 AM, Andreas Kuntzagk wrote:
For the first of
Sorry for bringing this back but I am having an issue with the
example_watch_folder.pl script. After running in and put a fasta file, it gets
copied over but it is empty. Any idea how to fix this issue.
Uploaded by: galaxy@
Date uploaded: 2013-05-30
File size: 0 bytes
Data type: txt
Build: ?
Hi,
As Admin, I uploaded a set of files from filesystems paths
Uploading is successful but when I try to make the datasets public I get
the following error:
Internal Server Error
Galaxy was unable to sucessfully complete your request ==By The
Way...NOTE how sucessfully is misspelled!!
URL:
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