Re: [galaxy-user] Asking for help from China about Galaxy Project

f questions are best asked on the Biostar Q&A site for Galaxy (https://biostar.usegalaxy.org/) or the user mailing list (CC'd). That will give you better exposure to the community and hence a better chance for an answer. Hope this help, Enis On Sat, May 24, 2014 at 9:43 AM, shiny wr

Re: [galaxy-user] How many registered users are there at galaxy?

Here is a bunch of project statistics, including the number of users on the Main server: https://wiki.galaxyproject.org/GalaxyProject/Statistics On Sat, Apr 19, 2014 at 6:16 AM, Peng Yu wrote: > Hi, > > I'm wondering how many registered users there are at galaxy. Is there > a way to check? Than

Re: [galaxy-user] Monitoring usage

Ni Neil, There is Galaxy Reports app all that runs as a separate web app and is generally available at /reports URL. It's config file needs to be configured to point to your Galaxy instance database (see reports_wsgi.ini in Galaxy's home dir) and the app launched via run_reports.sh. Hope this help

[galaxy-user] January 2014 Galaxy CloudMan Release

3 commit messages <https://bitbucket.org/galaxy/cloudman/commits/all?search=a6bf542%3Acc55ca9> from 4 contributors*. Enjoy and please let us know what you think, Enis Afgan <https://wiki.galaxyproject.org/EnisAfgan> and Dannon Bak

Re: [galaxy-user] Botryllus genome

Hi Katie, For genomes that are not available on Galaxy Main (or general questions you might have about Galaxy), it's best to send an email to the galaxy-user mailing list (CC'd now). You can subscribe to the mailing list here http://lists.bx.psu.edu/listinfo/galaxy-user As far as the particular ge

Re: [galaxy-user] How to become admin on Galaxy Cloudman

Hi Yan, On CloudMan's Admin page (i.e., /cloud/admin) you can add the email address you registered with in Galaxy on your cloud instance in the 'add galaxy admin' box and click add. After Galaxy restarts, you will have become an admin on that instance. Best, Enis On Sep 29, 2013 10:04 AM, "Yan He"

Re: [galaxy-user] CloudMan console not responding

Hi Deniz, Resizing the data volume via the main CloudMan page is fixed now and will work for any newly created cluster. On Thu, Aug 29, 2013 at 8:40 AM, Enis Afgan wrote: > Sorry to hear you're having trouble Deniz. I've just tried to replicate > the issues and wanted to check

Re: [galaxy-user] CloudMan console not responding

Sorry to hear you're having trouble Deniz. I've just tried to replicate the issues and wanted to check back in with you. What type of instances are you adding? I've just added 4-5 instances and removed 2-3, all without any issues. Is CloudMan reporting any errors or any indication in the log as to

Re: [galaxy-user] Uploading files to Cloudman by FTP

Hi Anto, This has now been fixed for any new cluster. Sorry for the trouble and let us know if you have any more questions. Cheers On Aug 9, 2013 5:06 PM, "Anto Praveen Rajkumar Rajamani" wrote: > Hello, > > I have started a new cloudman instance. > Now, I am trying to upload my fastq files to

Re: [galaxy-user] [galaxy-dev] Connecting to new Galaxy Cloudman by FTP

FTP issues are fixed now so things will be functional out of the box without any of these workarounds. On Tue, Jul 16, 2013 at 4:04 PM, Daniel Blankenberg wrote: > Hey Mo, > > You can use ssh to connect to the Galaxy machine. If you used cloudlaunch > to create your instance, it should display

[galaxy-user] Fwd: HCC Analysis Pipeline

Hi Moritz, I'm forwarding your message to galaxy-user mailing list and Jennifer from Galaxy. Between the two, you should be able to get some help because unfortunately this is not my area of expertise so I'm afraid I won't be of much help. Good luck, Enis -- Forwarded message -- F

Re: [galaxy-user] Local galaxy install vs cloudman

H Jim, The components for the cloud version are built in an automated fashion using CloudBioLinux scripts (https://github.com/chapmanb/cloudbiolinux) so maybe using those can get you closer to what you're after? Cheers, Enis On Wed, Mar 6, 2013 at 5:17 AM, James Vincent wrote: > Hello, > > The

Re: [galaxy-user] Why SGE needed for galaxy ?

Hi Zeeshan, In order to gain from the scalability of the cloud, SGE does need to run. However, CloudMan sets all that up and manages it going forward. Enis On Fri, Feb 8, 2013 at 8:59 AM, Zeeshan Ali Shah wrote: > Hi, > > It seems that cloud man need SGE for scaling . Does SGE need also when r

Re: [galaxy-user] converting solid files

Hi Nuphar, I believe yu should be using a tool that is color-space aware and not converting the data - Galaxy Main has 'Bowtie for SOLID' available, which should understand your data as is. BTW, for these types of questions, you should send the email to galaxy-user mailing list (http://lists.bx.ps

[galaxy-user] New Galaxy CloudMan Release

*We just released an update to CloudMan.* CloudMan offers an easy way to get a personal and completely functional instance of Galaxy in the cloud in just a few minutes, without any manual configuration. *This update brings a large number of updates and new features, the most prominent ones being:*

Re: [galaxy-user] Can't seem to stop or restart the Galaxy in server

With a certain version of Python there's been an issue stopping Galaxy using ctrl+C. You can use 'sh run.sh --daemon' to have the process run in the background and then 'sh run.sh --stop-damemon' to stop it. Hope this helps, Enis On Thu, Oct 18, 2012 at 4:12 PM, Sachit Adhikari < sachit.techner..

Re: [galaxy-user] galaxyTools volume not given enough time to attach

Hi Joel, This has been addressed in one of the more recent commits ( https://bitbucket.org/galaxy/cloudman/src/7bf68fba5d8b/cm/services/data/volume.py#cl-237) but the updated version of CloudMan hasn't been released since then so it's not generally available. At this point, the fastest fix would b

Re: [galaxy-user] Galaxy in cloud (not Amazon)

er maui)) and the Galaxy set for > cluster(http://wiki.g2.bx.psu.edu/Admin/Config/Performance/Cluster). > > We need Galaxy for large biological data quickly (faster than a stand > alone machine). > > Maybe we do not understand something? > > Best regards, > Anatoly > &g

Re: [galaxy-user] Galaxy CloudMan - Nodes can't make their own qsub calls?

Added: worker nodes are now submit hosts as well: https://bitbucket.org/galaxy/cloudman/changeset/b4c66783b42fb559b35b689363b34826d00ced34 This will be generally available with the next release of CloudMan is made (however, there is no immediate plans for doing so as quite a bit of other details n

Re: [galaxy-user] Galaxy in AWS AMI

Hi Lilach, It seems you ran into a bug that was introduced in the most recent CloudMan update. It's been fixed now. If you still have your instance up, the way to get around the issue is to simply strip off '/cloud' part of the URL and you'll get to Galaxy. Any new instances will work fine. Thanks

[galaxy-user] Updates to CloudMan

*We just released an update to CloudMan.* CloudMan offers an easy way to get a personal and completely functional instance of Galaxy in the cloud in just a few minutes, without any manual configuration. *This update brings a large number of updates and new features, the most prominent ones being:*

Re: [galaxy-user] galaxy cloud not setting up properly

Hi Thomas, Did you try restarting the instance (from AWS console or CloudMan's Admin page (preferred))? I just started a clean, new instance and everything setup just fine. If you still have trouble, try starting your cluster via biocloudcentral.org. Also, CloudMan's full log is available on the A

Re: [galaxy-user] Runtime on public Galaxy and current version of Galaxy on the Cloud?

Hi Diana, What type if instance did you use? You should use at least Large instace type. And did you make sure to format the user data as described in the wiki (http://wiki.g2.bx.psu.edu/CloudMan, under Step 2)? An alternative approach (which, granted, has not been publicized much yet) is to use h

Re: [galaxy-user] /mnt/galaxyIndices/hg19/bwa/base/hg19 not found

On Wed, May 9, 2012 at 1:09 AM, Zeeshan Ali Shah wrote: > Hi, I was following screenshot and after adding workflow > http://s3.amazonaws.com/heteroplasmy/heteroplasmy_information.html > > Upon running it is mentioning that /mnt/galaxyIndices/hg19/bwa/base/hg19 > which does not exist .. i have con

Re: [galaxy-user] mount issue

Hi Zeeshan, The file system error message you saw when you first start a new cluster is, oddly enough, the expected behavior. And, like you noticed, after the cluster has been initialized for the first time, subsequent startups do not show the error. Enis On Thu, May 10, 2012 at 4:11 AM, Zeeshan

Re: [galaxy-user] Cloudman - Problem starting shared cluster

Along with the folder structure Dannon is referring to, an appropriate EBS snapshot should exits under your account. This is available from the EC2 tab on the AWS console. As far as the complete logs goes, on CloudMan's admin page, there is a link to the full CloudMan log (alternatively, the same l

Re: [galaxy-user] Advice on disabling SGE queue on galaxy-cloudman

ables slots=0' (or 1 if the head node was bigger). > > This seemed to do the trick where the head node did not get overwhelmed > and quickly added nodes if the jobs were not fast to execute. And seems to > persist during auto scaling. > > John > > > On Tue, Mar

Re: [galaxy-user] Problems starting Galaxy Cloudman

Also Greg Starting a new cloudman instance with a different cluster name than previously used will always give you a clean environment and setup so you can continue to always use the us-east region. Cheers, Enis On 10/03/2012 2:08 PM, "Ross" wrote: > Since Dannon is likely asleep, maybe this wil

Re: [galaxy-user] Advice on disabling SGE queue on galaxy-cloudman

Hi John, Theoretically, this is a straightforward task but in reality CloudMan gets in the way of making it stick. Namely, if you are to manually remove the master instance from being an execution host, CloudMan will add it back in the next time a node is added or removed from the cluster, thus neg

Re: [galaxy-user] Is the result of galaxy tool (e.g. FastQ Groomer) automatically saved somewhere on a local linux server?

Hi Arthur, Any tools run on main.g2.bx... are only stored on that server and not on your local machine. By clicking on the Save icon (floppy disk) in your history item, you are able to transfer the data from the remote server to your local machine. As far as your local installation goes - the same

Re: [galaxy-user] Cloudman - Cluster could not complete job errors

Hi Dave, Sorry to hear you're having trouble and no, the behavior you describe is not the expected behavior. >From the description, unfortunately it does not sound like adding more nodes will help the case. Could you take a look at the log files for Galaxy and see if anything there is indicating a

Re: [galaxy-user] BioCloudCentral - First Launch Not Working

Hi Greg, This sounds like the availability zone issue. I am assuming you are restarting the same cluster (i.e., using the same name) and the instance that gets created may be created in a zone different from the one that the volume from the previous instantiation of the cluster was in. biocloudcent

Re: [galaxy-user] BioCloudCentral - First Launch Not Working

gt; > Would it be possible for the user to enter their zone on the form? Or > could CloudMan detect a problem, shutdown and try a different zone? > (probably infeasible). > > Thanks again, > > Greg > > On Tue, Jan 24, 2012 at 9:08 AM, Enis Afgan wrote: > > Hi Greg, >

Re: [galaxy-user] CloudMan - SGE / Cluster Questions

Hi again Greg, On Tue, Jan 24, 2012 at 2:51 PM, mailing list wrote: > Hi guys, > > So I'm trying to take a bioinformatics pipeline we currently run on > our own SGE cluster (which seems to have a lot of customizations ! I'm > finding out) and I want to run it on Amazon using CloudMan. > Glad to

Re: [galaxy-user] CloudMan - Galaxy - Sharing Confusion

Hi Greg, Please see below. Two follow up questions: > > 1. Can I terminate my main instance, then start a new Cloudman > instance later and enter this share string to get back to where I was? > That would save some money vs "stopping" my main instance. > You should always terminate a cluster. Sto

Re: [galaxy-user] CloudMan - Galaxy - Sharing Confusion

Hi Greg, Galaxy makes the tools more accessible by allowing web access to those tools, it automatically handles job submission and management, as well as allows simpler integration with other tools to form complex analyses. Enis On Thu, Jan 12, 2012 at 8:59 PM, mailing list wrote: > On Thu, Jan

Re: [galaxy-user] Bug ? in Galaxy Cloudman display

Hi Greg, The color legend for the node status has been removed from the distribution and replaced with the autoscaling option because it was too static to take up that much screen space. The icons should be easy to interpret standalone: - blue: pending instance from AWS - yellow: instance setup pha

Re: [galaxy-user] CloudMan - The connection has timed out

this question on Biostar too. I thought my email > > didn't make it to the user group. > > > > It probably makes sense to consolidate in one place so I'm continuing > > the updates over there: > > > http://biostar.stackexchange.com/questions/15554/galaxy-clo

Re: [galaxy-user] CloudMan - The connection has timed out

Hi Greg, Sorry to hear you're having trouble. Can you please confirm that you followed the step for creating a security group on the wiki and opened all the specified ports? Enis On Fri, Dec 16, 2011 at 7:58 PM, mailing list wrote: > Hi Everyone, > > I'm trying to set up Cloud man. > > I believ

[galaxy-user] An update to Galaxy CloudMan

A new version of CloudMan for running Galaxy on Amazon cloud has been released today. Any new cluster will automatically use this version. Existing clusters will have a link displayed at the top of the CloudMan console offering to perform an automated update. The new version brings the following u

Re: [galaxy-user] Using Galaxy Cloudman for a workshop

Hi Clare, Jeremy (from the team) ran a similar workshop several months ago and used some resource intensive tools (e.g., Tophat). We were concerned about the same scalability issues so we just started 4 separate clusters and divided the users across those. The approach worked well and it turned out

Re: [galaxy-user] Problem launching cloud instance

Hi Clare, Sorry about the trouble. I just disabled that if statement in the template so the option should no longer be disabled for any new cluster. My goal was to simplify usage but I'll obviously have to revisit the implementation... Sorry for the trouble and good luck with the demo tomorrow. Le

Re: [galaxy-user] Cost

Hi Lizex, The AWS pricing page has the prices for consuming their cloud resources: http://aws.amazon.com/ec2/#pricing As the model suggests, the total price will depend on your usage - at the minimum, you'll need 1 instance for the duration of your computation and an EBS volume to hold your data.

Re: [galaxy-user] Accessing Galaxy on the cloud from http

Hi Colleen, Sorry to see you're having trouble. To get some blunt things out of the way, what AMI are you using? Also, are you specifying your user data in the AWS instance request wizard exactly as it's shown on the Galaxy Cloud page ( http://wiki.g2.bx.psu.edu/Admin/Cloud

[galaxy-user] CloudMan automates cluster customization

Hello all, A new version of CloudMan has just been released. The two most prominent changes in this release include: 1. Support for automated persistance of modifications to the underlying file systems 2. Support for CloudBioLinux clusters on Ubuntu 11.04 - 1. CloudMan has sup

Re: [galaxy-user] latest ubuntu version for full unified install

Hi Joseph, The scripts have only been tested and used with the Ubuntu 10.04 LTS that's being used on the cloud and Galaxy VM. There are some libraries that some of the tools require but overall the scripts are likely to work with never versions of the OS. If you device to try the new 11.04 please l

Re: [galaxy-user] Enis: [galaxy-bugs] Security Groups int the cloud

Hi Luciano, Did you first create the galaxyWeb security group? Instructions are available on usegalaxy.org/cloud under Step 1. Enis > On 7/18/11 2:37 PM, Luciano Cosme wrote: > >> Hi, >>I am trying to run Galaxy in the cloud and I am following your >> screencast. I am having a problem when

Re: [galaxy-user] adding tools to cloud version

By default, on cluster termination and restart everything is reverted to the state the cluster was initially in. However, if you'd like to customize your instance by adding tools and such, it is possible. The document describing the procedure is available here: https://bitbucket.org/galaxy/galaxy-c

Re: [galaxy-user] cloud instance drops settings on reboot

dman' bucket? > > j > > ------ > *From:* Enis Afgan [eaf...@emory.edu] > *Sent:* Tuesday, June 28, 2011 6:48 PM > *To:* Joseph Hargitai > *Cc:* Oliver Hofmann; galaxy-user > > *Subject:* Re: [galaxy-user] cloud instance drops settings on reboot > > I

Re: [galaxy-user] cloud instance drops settings on reboot

Thanks for patience. Enis On Tue, Jun 28, 2011 at 6:38 PM, Joseph Hargitai < joseph.hargi...@einstein.yu.edu> wrote: > throws this: > > {"updated": false} > > -- > *From:* Enis Afgan [eaf...@emory.edu] > *Sent:* Tuesday, June

Re: [galaxy-user] cloud instance drops settings on reboot

owed Mac > formatting to prevail. Unicode was the culprit. > > > > > > I am missing however the Cloudman Admin tab you are referring to. Is this > a version issue? > > we use: galaxy-cloudman-2011-03-22 (ami-da58aab3) > > > > I do have the Admin ta

Re: [galaxy-user] cloud instance drops settings on reboot

ing to. > > joe > > > -- > *From:* Enis Afgan [eaf...@emory.edu] > *Sent:* Tuesday, June 28, 2011 3:30 PM > > *To:* Joseph Hargitai > *Cc:* galaxy-user@lists.bx.psu.edu > *Subject:* Re: [galaxy-user] cloud instance drops settings on reboot

Re: [galaxy-user] cloud instance drops settings on reboot

onHeaderError(fpname, lineno, line) >ConfigParser.MissingSectionHeaderError: File contains no section headers. >file: /mnt/galaxyTools/galaxy-central/universe_wsgi.ini, line: 1 >'\xff\xfe#\x00\n' ' > > > Is the edited bucket file causing an issue? How do

Re: [galaxy-user] cloud instance drops settings on reboot

Hi Joe, This is by design. In order to change the settings in universe_wsgi.ini, you should edit file universe_wsgi.ini.cloud in the cluster's bucket on S3. This file get pulled in by Cloudman each time an instance starts. As far as restarting Cloudman, there is a (new) Admin panel (link at top ri

Re: [galaxy-user] aspera install on cloud install

Hi Joe, We have not tried aspera (if I recall correctly, they're not open source?). At the University of Chicago, though, there has been some work on enabling Galaxy on the cloud to work with GridFTP and GlobusOnline, which is somewhat related. There is a talk and PPT about that available at http:/

Re: [galaxy-user] Most Popular Linux flavour for Galaxy

on wrote: > Hi Enis, > > Is that 64 bit Ubuntu, and why not Ubuntu 11.04 - are there stability > issues with later versions? I know Bio-linux uses 64 bit Ubuntu 10.04 as > well. > > - Ron > > On Jun 7, 2011, at 10:15 AM, Enis Afgan wrote: > > Hi Matloob, > Others

Re: [galaxy-user] Most Popular Linux flavour for Galaxy

Hi Matloob, Others should contribute their experiences as well but for the Galaxy VM and cloud, we use Ubuntu 10.04. Also, to automate the machine setup, we have a scripts that perform all of the required setup steps; the scripts are usable by anyone for a range of machines and are available here:

Re: [galaxy-user] Help with Galaxy Cloudman

Hi Mike, I just started a brand new instance with an account that is different from the one used to create required AWS components and Cloudman came up just fine, having started all of the required services. Not that it should matter much, but are you instantiating a brand new instance or recoverin

Re: [galaxy-user] galaxy on the cloud - cannot select fastq files when trying to run workflow

Hi Amit, The workflow requires the input data to be in 'fastqsanger' format before being able to run. The files you uploaded from S3 are already in the correct format but this is most likely not set correctly in the metadata. So, click on the pencil icon for each of the datasets in your history and

Re: [galaxy-user] database on the cloud

Hi Thomas, It turns out you discovered a bug in the cloud setup. We're missing a 2bit file and a respective reference to the file for the extract genomic DNA tool. We'll update the deployment but in the mean time you can configure the instance yourself with just a few commands: # connect to the ins

Re: [galaxy-user] Help!!!!!! with Galaxy Cloud!!!!!

the) BAM file once I get it > to my local machine. Each step is one step closer. > > Thanks again, > Mike > > > --- On *Fri, 4/15/11, Enis Afgan * wrote: > > > From: Enis Afgan > Subject: Re: [galaxy-user] Help!! with Galaxy Cloud! > To: "Mike Dufa

Re: [galaxy-user] Help!!!!!! with Galaxy Cloud!!!!!

able to see all of the .dat files in /mnt/galaxyData. What > commands can I use to download a file to my HD? Also, what program should I > use to open the .dat file? > > Thanks again, > > Mike > > --- On *Wed, 4/13/11, Enis Afgan * wrote: > > > From: Enis Afgan

Re: [galaxy-user] View Running Job from Multiple Computers?

Yes it is - where you access the cloud console or Galaxy from has no affect on running of the jobs. Enis On Thu, Apr 14, 2011 at 12:01 PM, Mike Dufault wrote: > Hi, > > I have an instance of Galaxy running on AWS. I would like to view it's > progress throughout the day, but I am not always at m

Re: [galaxy-user] Help!!!!!! with Galaxy Cloud!!!!!

omewhere in the EBS volume. I started a > new Unix cluster and "attached" the EBS to that cluster. I also established > an ssh to the Unis cluster but I do not know where to find the BAM file. Do > you know how I can access the BAM file so that I can transfer it to my local >

Re: [galaxy-user] Help!!!!!! with Galaxy Cloud!!!!!

wrote: > I was wondering if there are instructions how can I run the Galaxy on > CloudConsole, Indeed first I want to know how Galaxy is established on > console? Can someone direct me to the instructions please. > > Thanks. > > --- On *Tue, 4/12/11, Enis Afgan * wrote: &

Re: [galaxy-user] Help!!!!!! with Galaxy Cloud!!!!!

nks again to you and the whole Galaxy team. > > Best, > > Mike > > --- On *Tue, 4/12/11, Enis Afgan * wrote: > > > From: Enis Afgan > Subject: Re: [galaxy-user] Help!! with Galaxy Cloud! > To: "Mike Dufault" > Cc: "Anton Nekrutenko&q

Re: [galaxy-user] Help!!!!!! with Galaxy Cloud!!!!!

t; know how to access the Analysis window. > > Is there a way back into my analysis? > > Thanks, > Mike > > > > --- On *Tue, 4/12/11, Enis Afgan * wrote: > > > From: Enis Afgan > Subject: Re: [galaxy-user] Help!! with Galaxy Cloud! > To: "M

Re: [galaxy-user] Help!!!!!! with Galaxy Cloud!!!!!

Hi Mike, Try accessing your Galaxy instance now. It should be ok. The link in your email contained the IP for your instance so I took the liberty of restarting Galaxy and that brought it back up. There seems to have been an issue with Galaxy accessing its database and that resulted in Galaxy crash

Re: [galaxy-user] server error trying to DL data from galaxy on cloud

You're almost there, the command should be executed from your local machine (home directory is fine) and it should look as follows: scp -i ubuntu@:/mnt/galaxyData/files/000/dataset_11.dat . (note the 'ubuntu@' before the and a trailing dot (.) - the dot means your current directory on your curren

Re: [galaxy-user] server error trying to DL data from galaxy on cloud

Hi Karl, Hmm, not having Galaxy accessible is definitely not a step in the right direction. Being signed into command line is not an issue; something else must have gone wrong. To start, please take a look at the (bottom of) galaxy log file (and email the relevant part if you don't see how to fix i

Re: [galaxy-user] server error trying to DL data from galaxy on cloud

Hi Karl, As you see from the error message, you seem to be getting this error because the machine is running out of memory. This can in part be caused by a configuration option that might be set in Galaxy's universe_wsgi.ini file (see below). Did you have any jobs running while trying to download t

Re: [galaxy-user] dataflow using Galaxy on Amazon EC2

? > > With best wishes, > Luqman > > > > > On Mar 25, 2011, at 2:27 PM, Enis Afgan wrote: > > Hi Luqman, > Take a look a my comments below. > > On Fri, Mar 25, 2011 at 5:06 PM, Luqman Hodgkinson wrote: > >> >> >> >> >> Hi Enis, &g

Re: [galaxy-user] dataflow using Galaxy on Amazon EC2

can be done with tools once they are integrated with Galaxy as well as the type of data and information Galaxy keeps. That should give you a good indication of whether available functionality can be applied in your scenario as well. Enis > Sincerely, with best wishes, > Luqman >

Re: [galaxy-user] dataflow using Galaxy on Amazon EC2

Hi Luqman, Were you planning on using Galaxy CloudMan (usegalaxy.org/cloud) and integrating your tool (i.e., Java classes) into the Galaxy that it deploys or simply starting a new EC2 instance and setting up a Galaxy instance from scratch? Either way, I would suggest trying the process out on your

Re: [galaxy-user] Galaxy on Cloud not recognizing .txt files as fastq

Thanks Dan. The revision of Galaxy is the problem - the instance of Galaxy on the cloud is a month old now; it is at revision 5064 so. I'll release an update in the coming days along with an updated CloudMan. Enis On Mon, Mar 14, 2011 at 11:24 PM, Daniel Blankenberg wrote: > Hi Karl, > > Using

Re: [galaxy-user] Galaxy on Cloud not recognizing .txt files as fastq

Hi Karl, As a quick check, are the permissions for the S3 file set so anyone can read the file? That's required before Galaxy's upload tool will be able to access the file. Alternatively, if you don't want to set such loose permissions, you should be able to get a a signed URL for the given file us

[galaxy-user] An update to Galaxy CloudMan

We'd like to announce an update to Galaxy CloudMan - a completely standalone version Galaxy on Amazon's cloud. The new version has been released that brings a number of improvements to the core functionality of CloudMan and expands the number of tools available within Galaxy CloudMan to match that