Tamara Simakova | 15 Apr 08:53 2014

bedtools error

Hello!

I'm using BedTools on the main Galaxy server. I try to use multiinter function to compare two bed files, but there is an error in the resulted file. Some coordinates that are present in both files are marked as they present only in one file. The bed-files format is correct. What could be the problem?

Thanks,
Tamara Simakova
Attachment (IAD39777_one-based_half-opened.bed): application/octet-stream, 1835 bytes
Attachment (new_bad_regions.bed): application/octet-stream, 599 bytes
<div><div dir="ltr">
<span>Hello!</span><div>
<span><br></span><div><span>I'm using BedTools on the main Galaxy server. I try to use multiinter function to compare two bed files, but there is an error in the resulted file. Some coordinates that are present in both files are marked as they present only in one file. The bed-files format is correct. What could be the problem?</span></div>
<div><span><br></span></div>
<div><span>Thanks,</span></div>
<div><span>Tamara Simakova</span></div>
</div>
</div></div>
Jennifer Jackson | 12 Apr 02:45 2014
Picon

trouble visualizing data

Hi Lindsey,

I see a few potential problem areas here. Double check these things:

1. when uploading, if the files are over 2G, or close to that, use FTP instead of a browser upload. Here is how: https://wiki.galaxyproject.org/FTPUpload

2. do not use the option to convert spaces to tabs. I doubt this does anything to a compressed format like BAM, but you almost never want to use this. Really is only for hand entered or pasted in data.

3. Try to convert the file to SAM to see if that functions. This will do two things: confirm basic BAM format is intact and permit you to examine the sequence identifiers on the header. Or try a tool like Picard's 'BAM Index Statistics'.

4. There could be an identifier mismatch problem between your data and our internal reference genome. The only ways to check are to either run some type of job that will list out our genome's sequences in the UI (like a small mapping job that creates a Galaxy-native BAM/SAM file) or obtain our version of the genome by rysnc and compare your files against it locally (before uploading to Galaxy). Both have advantages. The rsync server instructions are here, and I happened to use the genome question from yesterday to fill in the example last night, so you have near-exact instructions!
https://wiki.galaxyproject.org/Admin/UseGalaxyRsync

5. If all else fails, consider loading the genome that you used to do the mapping up to Galaxy as a Custom reference genome:
https://wiki.galaxyproject.org/Support#Custom_reference_genome
https://wiki.galaxyproject.org/Support#Reference_genomes

There have been some UI delays, but these are transient. Resubmitting the action has been working, so try that if buttons do not respond the first time.

Let us know if you continue to have problems,

Jen
Galaxy team

On 4/11/14 9:20 AM, Lindsey Fallis wrote:
Hi Jennifer, I’m a post doc working with Brenda Oppert (she contacted you yesterday with some problems). I too have been having some problems getting visualizations to work. My goal is to show the Tribolium genome as a Circster plot with my RNA-seq data laid on top. My RNA-seq data is currently in .bam format. So far what I have a attempted to do is upload my .bam files into Galaxy using the Get Data, upload file from computer functions. Then I choose my file, check the ‘convert spaces to tabs’ box and set the genome to Tcas. It uploads correctly. Then I ask it to visualize as Circster and nothing happens… Then I tried viewing in trackster and nothing happens OR I get an error message saying one of my sequences isn’t in the genome file. Any suggestions to get the visualizations to work so that I have the Tcas chromosomes as the Circster backbone and my RNA-seq data showing around it? Thank you! Lindsey

-- Jennifer Hillman-Jackson http://galaxyproject.org
<div>

    Hi Lindsey,<br><br>
    I see a few potential problem areas here. Double check these things:<br><br>
    1. when uploading, if the files are over 2G, or close to that, use
    FTP instead of a browser upload. Here is how:
    <a class="moz-txt-link-freetext" href="https://wiki.galaxyproject.org/FTPUpload">https://wiki.galaxyproject.org/FTPUpload</a><br><br>
    2. do not use the option to convert spaces to tabs. I doubt this
    does anything to a compressed format like BAM, but you almost never
    want to use this. Really is only for hand entered or pasted in data.<br><br>
    3. Try to convert the file to SAM to see if that functions. This
    will do two things: confirm basic BAM format is intact and permit
    you to examine the sequence identifiers on the header. Or try a tool
    like Picard's 'BAM Index Statistics'.<br><br>
    4. There could be an identifier mismatch problem between your data
    and our internal reference genome. The only ways to check are to
    either run some type of job that will list out our genome's
    sequences in the UI (like a small mapping job that creates a
    Galaxy-native BAM/SAM file) or obtain our version of the genome by
    rysnc and compare your files against it locally (before uploading to
    Galaxy). Both have advantages. The rsync server instructions are
    here, and I happened to use the genome question from yesterday to
    fill in the example last night, so you have near-exact instructions!
    <br><a class="moz-txt-link-freetext" href="https://wiki.galaxyproject.org/Admin/UseGalaxyRsync">https://wiki.galaxyproject.org/Admin/UseGalaxyRsync</a><br><br>
    5. If all else fails, consider loading the genome that you used to
    do the mapping up to Galaxy as a Custom reference genome:<br><a class="moz-txt-link-freetext" href="https://wiki.galaxyproject.org/Support#Custom_reference_genome">https://wiki.galaxyproject.org/Support#Custom_reference_genome</a><br><a class="moz-txt-link-freetext" href="https://wiki.galaxyproject.org/Support#Reference_genomes">https://wiki.galaxyproject.org/Support#Reference_genomes</a><br><br>
    There have been some UI delays, but these are transient.
    Resubmitting the action has been working, so try that if buttons do
    not respond the first time.<br><br>
    Let us know if you continue to have problems,<br><br>
    Jen<br>
    Galaxy team<br><br><div class="moz-cite-prefix">On 4/11/14 9:20 AM, Lindsey Fallis
      wrote:<br>
</div>
    <blockquote cite="mid:F7F88CB5-60DF-4B68-B689-22B77136DA77@..." type="cite">
      Hi Jennifer,

I&rsquo;m a post doc working with Brenda Oppert (she contacted you yesterday with some problems).  I too have been having some problems getting visualizations to work.  My goal is to show the Tribolium genome as a Circster plot with my RNA-seq data laid on top.  My RNA-seq data is currently in .bam format.  So far what I have a attempted to do is upload my .bam files into Galaxy using the Get Data, upload file from computer functions.  Then I choose my file, check the &lsquo;convert spaces to tabs&rsquo; box and set the genome to Tcas.  It uploads correctly.  Then I ask it to visualize as Circster and nothing happens&hellip;  Then I tried viewing in trackster and nothing happens OR I get an error message saying one of my sequences isn&rsquo;t in the genome file.  Any suggestions to get the visualizations to work so that I have the Tcas chromosomes as the Circster backbone and my RNA-seq data showing around it?

Thank you!
Lindsey

    </blockquote>
    <br>-- 
Jennifer Hillman-Jackson
<a class="moz-txt-link-freetext" href="http://galaxyproject.org">http://galaxyproject.org</a>
  </div>
Jennifer Jackson | 12 Apr 02:47 2014
Picon

trouble visualizing data

Hi Lindsey,

I see a few potential problem areas here. Double check these things:

1. when uploading, if the files are over 2G, or close to that, use FTP instead of a browser upload. Here is how: https://wiki.galaxyproject.org/FTPUpload

2. do not use the option to convert spaces to tabs. I doubt this does anything to a compressed format like BAM, but you almost never want to use this. Really is only for hand entered or pasted in data.

3. Try to convert the file to SAM to see if that functions. This will do two things: confirm basic BAM format is intact and permit you to examine the sequence identifiers on the header. Or try a tool like Picard's 'BAM Index Statistics'.

4. There could be an identifier mismatch problem between your data and our internal reference genome. The only ways to check are to either run some type of job that will list out our genome's sequences in the UI (like a small mapping job that creates a Galaxy-native BAM/SAM file) or obtain our version of the genome by rysnc and compare your files against it locally (before uploading to Galaxy). Both have advantages. The rsync server instructions are here, and I happened to use the genome question from yesterday to fill in the example last night, so you have near-exact instructions!
https://wiki.galaxyproject.org/Admin/UseGalaxyRsync

5. If all else fails, consider loading the genome that you used to do the mapping up to Galaxy as a Custom reference genome:
https://wiki.galaxyproject.org/Support#Custom_reference_genome
https://wiki.galaxyproject.org/Support#Reference_genomes

There have been some UI delays, but these are transient. Resubmitting the action has been working, so try that if buttons do not respond the first time.

Let us know if you continue to have problems,

Jen
Galaxy team

On 4/11/14 9:20 AM, Lindsey Fallis wrote:
Hi Jennifer, I’m a post doc working with Brenda Oppert (she contacted you yesterday with some problems). I too have been having some problems getting visualizations to work. My goal is to show the Tribolium genome as a Circster plot with my RNA-seq data laid on top. My RNA-seq data is currently in .bam format. So far what I have a attempted to do is upload my .bam files into Galaxy using the Get Data, upload file from computer functions. Then I choose my file, check the ‘convert spaces to tabs’ box and set the genome to Tcas. It uploads correctly. Then I ask it to visualize as Circster and nothing happens… Then I tried viewing in trackster and nothing happens OR I get an error message saying one of my sequences isn’t in the genome file. Any suggestions to get the visualizations to work so that I have the Tcas chromosomes as the Circster backbone and my RNA-seq data showing around it? Thank you! Lindsey

-- Jennifer Hillman-Jackson http://galaxyproject.org
<div>

    Hi Lindsey,<br><br>
    I see a few potential problem areas here. Double check these things:<br><br>
    1. when uploading, if the files are over 2G, or close to that, use
    FTP instead of a browser upload. Here is how:
    <a class="moz-txt-link-freetext" href="https://wiki.galaxyproject.org/FTPUpload">https://wiki.galaxyproject.org/FTPUpload</a><br><br>
    2. do not use the option to convert spaces to tabs. I doubt this
    does anything to a compressed format like BAM, but you almost never
    want to use this. Really is only for hand entered or pasted in data.<br><br>
    3. Try to convert the file to SAM to see if that functions. This
    will do two things: confirm basic BAM format is intact and permit
    you to examine the sequence identifiers on the header. Or try a tool
    like Picard's 'BAM Index Statistics'.<br><br>
    4. There could be an identifier mismatch problem between your data
    and our internal reference genome. The only ways to check are to
    either run some type of job that will list out our genome's
    sequences in the UI (like a small mapping job that creates a
    Galaxy-native BAM/SAM file) or obtain our version of the genome by
    rysnc and compare your files against it locally (before uploading to
    Galaxy). Both have advantages. The rsync server instructions are
    here, and I happened to use the genome question from yesterday to
    fill in the example last night, so you have near-exact instructions!
    <br><a class="moz-txt-link-freetext" href="https://wiki.galaxyproject.org/Admin/UseGalaxyRsync">https://wiki.galaxyproject.org/Admin/UseGalaxyRsync</a><br><br>
    5. If all else fails, consider loading the genome that you used to
    do the mapping up to Galaxy as a Custom reference genome:<br><a class="moz-txt-link-freetext" href="https://wiki.galaxyproject.org/Support#Custom_reference_genome">https://wiki.galaxyproject.org/Support#Custom_reference_genome</a><br><a class="moz-txt-link-freetext" href="https://wiki.galaxyproject.org/Support#Reference_genomes">https://wiki.galaxyproject.org/Support#Reference_genomes</a><br><br>
    There have been some UI delays, but these are transient.
    Resubmitting the action has been working, so try that if buttons do
    not respond the first time.<br><br>
    Let us know if you continue to have problems,<br><br>
    Jen<br>
    Galaxy team<br><br><div class="moz-cite-prefix">On 4/11/14 9:20 AM, Lindsey Fallis
      wrote:<br>
</div>
    <blockquote cite="mid:F7F88CB5-60DF-4B68-B689-22B77136DA77@..." type="cite">
      Hi Jennifer,

I&rsquo;m a post doc working with Brenda Oppert (she contacted you yesterday with some problems).  I too have been having some problems getting visualizations to work.  My goal is to show the Tribolium genome as a Circster plot with my RNA-seq data laid on top.  My RNA-seq data is currently in .bam format.  So far what I have a attempted to do is upload my .bam files into Galaxy using the Get Data, upload file from computer functions.  Then I choose my file, check the &lsquo;convert spaces to tabs&rsquo; box and set the genome to Tcas.  It uploads correctly.  Then I ask it to visualize as Circster and nothing happens&hellip;  Then I tried viewing in trackster and nothing happens OR I get an error message saying one of my sequences isn&rsquo;t in the genome file.  Any suggestions to get the visualizations to work so that I have the Tcas chromosomes as the Circster backbone and my RNA-seq data showing around it?

Thank you!
Lindsey

    </blockquote>
    <br>-- 
Jennifer Hillman-Jackson
<a class="moz-txt-link-freetext" href="http://galaxyproject.org">http://galaxyproject.org</a>
  </div>
KS | 12 Apr 00:16 2014
Picon

Base Recalibration tool on usegalaxy

Dear all,

I can't find either of Table Recalibration or Base Recalibrator on
usegalaxy public server. I am defident this is right place to ask, but
seqanswers is clouded with many other pipelines.

Is there an update of base recalibration tool on usegalaxy?

Best,
Kaz
Jennifer Jackson | 11 Apr 02:50 2014
Picon

Re: Add Tribolium genome

Hi Brenda,

The examples below are labeled by the tool/user interface location where the two menus are located. Which tool are you using under "Get Data"? Perhaps "UCSC Main"?

Any tool other than "Upload File" accesses an external data source and the available data can vary. It is important to know that the data content included on externally hosted sites is managed by that sites owners. If you are using "Get Data -> UCSC Main", then you are correct in that they do not provide data for this genome, just the ones you list.

When you do locate data for this species that you wish you use (try searching for "Tribolium castaneum" with the tool " EBI SRA ENA SRA"), and import it, the Galaxy locally cached reference genome for Tcas_3.0 is available with several, but not all, mapping tools. It is likely to be added to Bowtie2/Tophat2 sometime in the future.

Thanks!

Jen
Galaxy team

On 4/10/14 2:27 PM, Brenda Oppert wrote:
<!--P{margin-top:0;margin-bottom:0;} .ms-cui-menu {background-color:#ffffff;border:1px rgb(171, 171, 171) solid;font-family:'Segoe UI WPC','Segoe UI',Tahoma,'Microsoft Sans Serif',Verdana,sans-serif;font-size:10pt;color:rgb(51, 51, 51);} .ms-cui-menusection-title {display:none;} .ms-cui-ctl {vertical-align:text-top;text-decoration:none;color:rgb(51, 51, 51);} .ms-cui-ctl-on {background-color:rgb(223, 237, 250);opacity: 0.8;} .ms-cui-img-cont-float {display:inline-block;margin-top:2px} .ms-cui-smenu-inner {padding-top:0px;} .ms-owa-paste-option-icon {margin: 2px 4px 0px 4px;vertical-align:sub;padding-bottom: 2px;display:inline-block;} .ms-rtePasteFlyout-option:hover {background-color:rgb(223, 237, 250) !important;opacity:1 !important;} .ms-r tePasteFlyout-option {padding:8px 4px 8px 4px;outline:none;} .ms-cui-menusection {float:left; width:85px;height:24px;overflow:hidden}.wf {speak:none; font-weight:normal; font-variant:normal! ; text-tra nsform:none; -webkit-font-smoothing:antialiased; vertical-align:middle; display:inline-block;}.wf-family-owa {font-family:'o365Icons'} <at> font-face { font-family:'o365IconsIE8'; src:url('https://r4.res.outlook.com/owa/prem/15.0.913.9/resources/styles/office365icons.ie8.eot?#iefix') format('embedded-opentype'), url('https://r4.res.outlook.com/owa/prem/15.0.913.9/resources/styles/office365icons.ie8.woff') format('woff'), url('https://r4.res.outlook.com/owa/prem/15.0.913.9/resources/styles/office365icons.ie8.ttf') format('truetype'); font-weight:normal; font-style:normal;} <at> font-face { font-family:'o365IconsMouse'; src:url('https://r4.res.outlook.com/owa/prem/15.0.913.9/resources/styles/office365icons.mouse.eot?#iefix') format('embedded-opentype'), url('https://r4.re s.outlook.com/owa/prem/15.0.913.9/resources/styles/office365icons.mouse.woff') format('woff'), url('https://r4.res.outlook.com/owa/prem/15.0.913.9/resources/styles/office365icons.mo! use.ttf') format('truetype'); font-weight:normal; font-style:normal;}.wf-family-owa {font-family:'o365IconsMouse'}.ie8 .wf-family-owa {font-family:'o365IconsIE8'}.ie8 .wf-owa-play-large:before {content:'\e254';}.notIE8 .wf-owa-play-large:before {content:'\e054';}.ie8 .wf-owa-play-large {color:#FFFFFF/*$WFWhiteColor*/;}.notIE8 .wf-owa-play-large {border-color:#FFFFFF/*$WFWhiteColor*/; width:1.4em; height:1.4em; border-width:.1em; border-style:solid; border-radius:.8em; text-align:center; box-sizing:border-box; -moz-box-sizing:border-box; padding:0.1em; color:#FFFFFF/*$WFWhiteColor*/;}.ie8 .wf-size-play-large {width:40px; height:40px; font-size:30px}.notIE8 .wf-size-play-large {width:40px; height:40px; font-size:30px}-->

Hi Jen,


When I go to "get data" and I put "insect" the only pull downs are some Drosophila and Anopheles spp. Is it somewhere else?


Thanks,


Brenda

From: Jennifer Jackson <jen-dukY5rQBki03uPMLIKxrzw@public.gmane.org>
Sent: Thursday, April 10, 2014 4:18 PM
To: Brenda Oppert; galaxy-user-btkOtGxnL5087WB9TwDe4A@public.gmane.org
Subject: Re: [galaxy-user] Add Tribolium genome
 
Hello Brenda,

Are you working at http://usegalaxy.org? I just checked and it is still there. Please give this another look.

Thanks!

Jen
Galaxy team


On "Get Data -> Upload File" tool:


Under "Edit Attributes" (found by clicking on a dataset's pencil icon):


On 4/10/14 11:06 AM, Brenda Oppert wrote:
I thought that the genome sequence for Tribolium castaneum (Tcas3.0) was in the genome pull-down, but I don't see it. Can it be added? Thanks, Brenda ___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev 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/

-- Jennifer Hillman-Jackson http://galaxyproject.org

-- Jennifer Hillman-Jackson http://galaxyproject.org
<div>
    Hi Brenda,<br><br>
    The examples below are labeled by the tool/user interface location
    where the two menus are located. Which tool are you using under "Get
    Data"? Perhaps "UCSC Main"? <br><br>
    Any tool other than "Upload File" accesses an external data source
    and the available data can vary. It is important to know that the
    data content included on externally hosted sites is managed by that
    sites owners. If you are using "Get Data -&gt; UCSC Main", then you
    are correct in that they do not provide data for this genome, just
    the ones you list. <br><br>
    When you do locate data for this species that you wish you use (try
    searching for "Tribolium castaneum" with the tool "

    EBI SRA ENA SRA"), and import it, the Galaxy locally cached
    reference genome for Tcas_3.0 is available with several, but not
    all, mapping tools. It is likely to be added to Bowtie2/Tophat2
    sometime in the future. <br><br>
    Thanks!<br><br>
    Jen<br>
    Galaxy team<br><br><div class="moz-cite-prefix">On 4/10/14 2:27 PM, Brenda Oppert
      wrote:<br>
</div>
    <blockquote cite="mid:71b8e5f09d73465fbc8f9b1e896b20c8@..." type="cite">
      &lt;!--P{margin-top:0;margin-bottom:0;} .ms-cui-menu {background-color:#ffffff;border:1px rgb(171, 171, 171) solid;font-family:'Segoe UI WPC','Segoe UI',Tahoma,'Microsoft Sans Serif',Verdana,sans-serif;font-size:10pt;color:rgb(51, 51, 51);} .ms-cui-menusection-title {display:none;} .ms-cui-ctl {vertical-align:text-top;text-decoration:none;color:rgb(51, 51, 51);} .ms-cui-ctl-on {background-color:rgb(223, 237, 250);opacity: 0.8;} .ms-cui-img-cont-float {display:inline-block;margin-top:2px} .ms-cui-smenu-inner {padding-top:0px;} .ms-owa-paste-option-icon {margin: 2px 4px 0px 4px;vertical-align:sub;padding-bottom: 2px;display:inline-block;} .ms-rtePasteFlyout-option:hover {background-color:rgb(223, 237, 250) !important;opacity:1 !important;} .ms-r
 tePasteFlyout-option {padding:8px 4px 8px 4px;outline:none;} .ms-cui-menusection {float:left; width:85px;height:24px;overflow:hidden}.wf {speak:none; font-weight:normal; font-variant:normal!
 ; text-tra
nsform:none; -webkit-font-smoothing:antialiased; vertical-align:middle; display:inline-block;}.wf-family-owa {font-family:'o365Icons'} <at> font-face {  font-family:'o365IconsIE8';  src:url('https://r4.res.outlook.com/owa/prem/15.0.913.9/resources/styles/office365icons.ie8.eot?#iefix') format('embedded-opentype'),         url('https://r4.res.outlook.com/owa/prem/15.0.913.9/resources/styles/office365icons.ie8.woff') format('woff'),         url('https://r4.res.outlook.com/owa/prem/15.0.913.9/resources/styles/office365icons.ie8.ttf') format('truetype');  font-weight:normal;  font-style:normal;} <at> font-face {  font-family:'o365IconsMouse';  src:url('https://r4.res.outlook.com/owa/prem/15.0.913.9/resources/styles/office365icons.mouse.eot?#iefix') format('embedded-opentype'),         url('https://r4.re
 s.outlook.com/owa/prem/15.0.913.9/resources/styles/office365icons.mouse.woff') format('woff'),         url('https://r4.res.outlook.com/owa/prem/15.0.913.9/resources/styles/office365icons.mo!
 use.ttf') 
format('truetype');  font-weight:normal;  font-style:normal;}.wf-family-owa {font-family:'o365IconsMouse'}.ie8 .wf-family-owa {font-family:'o365IconsIE8'}.ie8 .wf-owa-play-large:before {content:'\e254';}.notIE8 .wf-owa-play-large:before {content:'\e054';}.ie8 .wf-owa-play-large {color:#FFFFFF/*$WFWhiteColor*/;}.notIE8 .wf-owa-play-large {border-color:#FFFFFF/*$WFWhiteColor*/; width:1.4em; height:1.4em; border-width:.1em; border-style:solid; border-radius:.8em; text-align:center; box-sizing:border-box; -moz-box-sizing:border-box; padding:0.1em; color:#FFFFFF/*$WFWhiteColor*/;}.ie8 .wf-size-play-large {width:40px; height:40px; font-size:30px}.notIE8 .wf-size-play-large {width:40px; height:40px; font-size:30px}--&gt;<div>
        <p>Hi Jen,</p>
        <p><br></p>
        <p>When I go to "get data" and I put "insect" the only pull
          downs are some Drosophila and Anopheles spp. Is it somewhere
          else?</p>
        <p><br></p>
        <p>Thanks,</p>
        <p><br></p>
        <p>Brenda<br></p>
        <div>
          <div dir="ltr">From:
              Jennifer Jackson <a class="moz-txt-link-rfc2396E" href="mailto:jen@...">&lt;jen@...&gt;</a><br>Sent: Thursday, April 10, 2014 4:18 PM<br>To: Brenda Oppert; <a class="moz-txt-link-abbreviated" href="mailto:galaxy-user@...">galaxy-user@...</a><br>Subject: Re: [galaxy-user] Add Tribolium genome
            <div>&nbsp;</div>
          </div>
          <div>Hello Brenda,<br><br>
            Are you working at <a moz-do-not-send="true" class="moz-txt-link-freetext" href="http://usegalaxy.org">http://usegalaxy.org</a>?
            I just checked and it is still there. Please give this
            another look.<br><br>
            Thanks!<br><br>
            Jen<br>
            Galaxy team<br><br><br>
            On "Get Data -&gt; Upload File" tool:<br><br><br>
            Under "Edit Attributes" (found by clicking on a dataset's
            pencil icon):<br><br><br><div class="moz-cite-prefix">On 4/10/14 11:06 AM, Brenda
              Oppert wrote:<br>
</div>
            <blockquote type="cite">
              I thought that the genome sequence for Tribolium castaneum (Tcas3.0) was in the genome pull-down, but I don't see it.  Can it be added?

Thanks,

Brenda
___________________________________________________________
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org.  Please keep all replies on the list by
using "reply all" in your mail client.  For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:

  <a moz-do-not-send="true" class="moz-txt-link-freetext" href="http://lists.bx.psu.edu/listinfo/galaxy-dev">http://lists.bx.psu.edu/listinfo/galaxy-dev</a>

To manage your subscriptions to this and other Galaxy lists,
please use the interface at:

  <a moz-do-not-send="true" class="moz-txt-link-freetext" href="http://lists.bx.psu.edu/">http://lists.bx.psu.edu/</a>

To search Galaxy mailing lists use the unified search at:

  <a moz-do-not-send="true" class="moz-txt-link-freetext" href="http://galaxyproject.org/search/mailinglists/">http://galaxyproject.org/search/mailinglists/</a>

            </blockquote>
            <br>-- 
Jennifer Hillman-Jackson
<a moz-do-not-send="true" class="moz-txt-link-freetext" href="http://galaxyproject.org">http://galaxyproject.org</a>
          </div>
        </div>
      </div>
    </blockquote>
    <br>-- 
Jennifer Hillman-Jackson
<a class="moz-txt-link-freetext" href="http://galaxyproject.org">http://galaxyproject.org</a>
  </div>
Brenda Oppert | 10 Apr 20:06 2014

Add Tribolium genome

I thought that the genome sequence for Tribolium castaneum (Tcas3.0) was in the genome pull-down, but I
don't see it.  Can it be added?

Thanks,

Brenda
Sarah Schaack | 10 Apr 10:53 2014
Picon

server problem?

Hi there!

I am teaching a workshop in East Africa, right this second, and we are trying to use a tool in galaxy (not too complex, files are not huge) to illustrate RNA-seq analysis.  The server is SOOOOOOO slow-- is there a problem?  Should we abandon ship and teach them Tophat using the command line?  Please advise, at your earliest convenience-- I have a room full of impatient newbie hackers ;)

Thank you!
--Sarah





****************************************
Sarah Schaack, PhD
Assistant Professor, Reed College

Fulbright Scholar, Centre for Bioinformatics and Biotechnology, University of Nairobi
and Biosciences Eastern and Central Africa Hub, Int'l Livestock Research Institute
<div><div dir="ltr">
<div>
<div>Hi there!<br><br>
</div>I am teaching a workshop in East Africa, right this second, and we are trying to use a tool in galaxy (not too complex, files are not huge) to illustrate RNA-seq analysis.&nbsp; The server is SOOOOOOO slow-- is there a problem?&nbsp; Should we abandon ship and teach them Tophat using the command line?&nbsp; Please advise, at your earliest convenience-- I have a room full of impatient newbie hackers ;)<br><br>
</div>
<div>Thank you!<br>
</div>--Sarah<br><br><br><div><div>
<br><br><br><div><div dir="ltr"><div>****************************************<span><br></span><span></span><span>Sarah Schaack, PhD<br>Assistant Professor, Reed College</span><br><div>
<span>Fulbright Scholar, Centre for Bioinformatics and Biotechnology, University of Nairobi<br></span><span><span>and Biosciences Eastern and Central Africa Hub, Int'l Livestock Research Institute</span><br></span>
</div>
<div><span>Email: &nbsp;<a href="mailto:schaackmobile@..." target="_blank">schaackmobile <at> gmail.com</a><br></span></div>
<div>
<span>Website: &nbsp;<a href="https://sites.google.com/site/schaackwork/" target="_blank">https://sites.google.com/site/schaackwork/</a><a><br></a></span><a><span>Phone (Kenya):</span>&nbsp; +254 7 29 470 027</a><a><br></a><div>Workshop Info:&nbsp; <a href="https://sites.google.com/site/bioinfogenomicswrkshpea/" target="_blank">https://sites.google.com/site/bioinfogenomicswrkshpea/</a><br>
</div>
</div>
</div></div></div>
</div></div>
</div></div>
Nishant THAKUR | 10 Apr 14:09 2014
Picon

Can not delete data from my local galaxy

Hello,
I am using local galaxy server. I have disc storage problem and I noticed that galaxy is utilizing most of the
space. I deleted old projects permanently, but they are appearing again in the saved history  with one
message which says "datasets were not removed from disk because that feature is not enabled in this Galaxy instance".
Any suggestions how to enable this feature or delete dataset permanently from history.

Galaxy installed on ubuntu 12.04 LTS, 3.5.0-44-generic, 64bit.

Best regards
Nishant Thakur

Aarthi Mohan | 10 Apr 08:30 2014
Picon

Trackster error on dbkeys

Hi all,

I am setting up galaxy on a server running CentOS 6.5.
I found that Trackster application hits me with an error
"Could not load chroms for this dbkey: PF3D7", when I try "add new track" from Visualization.

I am working with Plasmodium falciparum (PF3d7) genome, and I followed the instruction for setting visualization from "https://wiki.galaxyproject.org/Visualization%20Setup" and placed the 2bit, len files in the appropriate path.

I have also made sure the genome build is present in the builds.txt under tool-data/shared/ucsc.

For a test, I have the human chromosomes len files and Trackster loads it without any problem.

Any suggestion would greatly help me.

Thanks
RT

Log file:
-----------
127.0.0.1 - - [10/Apr/2014:12:29:44 +0800] "GET /visualization/trackster HTTP/1.1" 200 - "http://127.0.0.1:8081/" "Mozilla/5.0 (X11; Linux x86_64; rv:24.0) Gecko/20100101 Firefox/24.0"
127.0.0.1 - - [10/Apr/2014:12:29:45 +0800] "GET /api/genomes?chrom_info=True HTTP/1.1" 200 - "http://127.0.0.1:8081/visualization/trackster" "Mozilla/5.0 (X11; Linux x86_64; rv:24.0) Gecko/20100101 Firefox/24.0"
127.0.0.1 - - [10/Apr/2014:12:29:51 +0800] "GET /api/genomes/PF3D7?low=0&num=100 HTTP/1.1" 500 - "http://127.0.0.1:8081/visualization/trackster" "Mozilla/5.0 (X11; Linux x86_64; rv:24.0) Gecko/20100101 Firefox/24.0"
Error - <type 'exceptions.IndexError'>: list index out of range
URL: http://127.0.0.1:8081/api/genomes/PF3D7?low=0&num=100
File '/data/maarthi/Galaxy/Test/galaxy-dist/lib/galaxy/web/framework/middleware/error.py', line 149 in __call__
  app_iter = self.application(environ, sr_checker)
File '/data/maarthi/Galaxy/Test/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 '/data/maarthi/Galaxy/Test/galaxy-dist/eggs/Paste-1.7.5.1-py2.6.egg/paste/httpexceptions.py', line 633 in __call__
  return self.application(environ, start_response)
File '/data/maarthi/Galaxy/Test/galaxy-dist/lib/galaxy/web/framework/base.py', line 132 in __call__
  return self.handle_request( environ, start_response )
File '/data/maarthi/Galaxy/Test/galaxy-dist/lib/galaxy/web/framework/base.py', line 190 in handle_request
  body = method( trans, **kwargs )
File '/data/maarthi/Galaxy/Test/galaxy-dist/lib/galaxy/web/framework/__init__.py', line 78 in decorator
  return to_json_string( func( self, trans, *args, **kwargs ) )
File '/data/maarthi/Galaxy/Test/galaxy-dist/lib/galaxy/webapps/galaxy/api/genomes.py', line 42 in show
  rval = self.app.genomes.chroms( trans, dbkey=id, num=num, chrom=chrom, low=low )
File '/data/maarthi/Galaxy/Test/galaxy-dist/lib/galaxy/visualization/genomes.py', line 292 in chroms
  rval = genome.to_dict( num=num, chrom=chrom, low=low )
File '/data/maarthi/Galaxy/Test/galaxy-dist/lib/galaxy/visualization/genomes.py', line 153 in to_dict
  chroms[ fields[0] ] = int( fields[1] )
IndexError: list index out of range


CGI Variables
-------------
  CONTENT_LENGTH: '0'
  HTTP_ACCEPT: 'application/json, text/javascript, */*; q=0.01'
  HTTP_ACCEPT_ENCODING: 'gzip, deflate'
  HTTP_ACCEPT_LANGUAGE: 'en-US,en;q=0.5'
  HTTP_CONNECTION: 'keep-alive'
  HTTP_COOKIE: 'galaxysession=c6ca0ddb55be603abc74375a63eca6a53211ad8efeb084140a6e95d9de0824b221b12b4bbc465351'
  HTTP_HOST: '127.0.0.1:8081'
  HTTP_REFERER: 'http://127.0.0.1:8081/visualization/trackster'
  HTTP_USER_AGENT: 'Mozilla/5.0 (X11; Linux x86_64; rv:24.0) Gecko/20100101 Firefox/24.0'
  HTTP_X_REQUESTED_WITH: 'XMLHttpRequest'
  PATH_INFO: '/api/genomes/PF3D7'
  QUERY_STRING: 'low=0&num=100'
  REMOTE_ADDR: '127.0.0.1'
  REQUEST_METHOD: 'GET'
  SERVER_NAME: '0.0.0.0'
  SERVER_PORT: '8081'
  SERVER_PROTOCOL: 'HTTP/1.1'


WSGI Variables
--------------
  application: <paste.recursive.RecursiveMiddleware object at 0x6b37cd0>
  is_api_request: True
  paste.cookies: (<SimpleCookie: galaxysession='c6ca0ddb55be603abc74375a63eca6a53211ad8efeb084140a6e95d9de0824b221b12b4bbc465351'>, 'galaxysession=c6ca0ddb55be603abc74375a63eca6a53211ad8efeb084140a6e95d9de0824b221b12b4bbc465351')
  paste.expected_exceptions: [<class 'paste.httpexceptions.HTTPException'>]
  paste.httpexceptions: <paste.httpexceptions.HTTPExceptionHandler object at 0x748eed0>
  paste.httpserver.thread_pool: <paste.httpserver.ThreadPool object at 0x795c310>
  paste.parsed_querystring: ([('low', '0'), ('num', '100')], 'low=0&num=100')
  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: 'c1be491ec06811e39ed60025905a9e10'
  webob._parsed_query_vars: (MultiDict([('low', '0'), ('num', '100')]), 'low=0&num=100')
  wsgi process: 'Multithreaded'
------------------------------------------------------------
<div><div dir="ltr">
<div>
<div>Hi all,<br><br>I am setting up galaxy on a server running CentOS 6.5.<br>I found that Trackster application hits me with an error<br>"Could not load chroms for this dbkey: PF3D7", when I try "add new track" from Visualization. <br><br>I am working with Plasmodium falciparum (PF3d7) genome, and I followed the instruction for setting visualization from "<a href="https://wiki.galaxyproject.org/Visualization%20Setup">https://wiki.galaxyproject.org/Visualization%20Setup</a>" and placed the 2bit, len files in the appropriate path. <br><br>I have also made sure the genome build is present in the builds.txt under tool-data/shared/ucsc.<br><br>For a test, I have the human chromosomes len files and Trackster loads it without any problem. <br><br>Any suggestion would greatly help me.<br><br>
</div>Thanks<br>
</div>RT<br><div><div>
<br>Log file:<br>-----------<br>127.0.0.1 - - [10/Apr/2014:12:29:44 +0800] "GET /visualization/trackster HTTP/1.1" 200 - "<a href="http://127.0.0.1:8081/">http://127.0.0.1:8081/</a>" "Mozilla/5.0 (X11; Linux x86_64; rv:24.0) Gecko/20100101 Firefox/24.0"<br>
127.0.0.1 - - [10/Apr/2014:12:29:45 +0800] "GET /api/genomes?chrom_info=True HTTP/1.1" 200 - "<a href="http://127.0.0.1:8081/visualization/trackster">http://127.0.0.1:8081/visualization/trackster</a>" "Mozilla/5.0 (X11; Linux x86_64; rv:24.0) Gecko/20100101 Firefox/24.0"<br>
127.0.0.1 - - [10/Apr/2014:12:29:51 +0800] "GET /api/genomes/PF3D7?low=0&amp;num=100 HTTP/1.1" 500 - "<a href="http://127.0.0.1:8081/visualization/trackster">http://127.0.0.1:8081/visualization/trackster</a>" "Mozilla/5.0 (X11; Linux x86_64; rv:24.0) Gecko/20100101 Firefox/24.0"<br>
Error - &lt;type 'exceptions.IndexError'&gt;: list index out of range<br>URL: <a href="http://127.0.0.1:8081/api/genomes/PF3D7?low=0&amp;num=100">http://127.0.0.1:8081/api/genomes/PF3D7?low=0&amp;num=100</a><br>File '/data/maarthi/Galaxy/Test/galaxy-dist/lib/galaxy/web/framework/middleware/error.py', line 149 in __call__<br>
&nbsp; app_iter = self.application(environ, sr_checker)<br>File '/data/maarthi/Galaxy/Test/galaxy-dist/eggs/Paste-1.7.5.1-py2.6.egg/paste/recursive.py', line 84 in __call__<br>&nbsp; return self.application(environ, start_response)<br>
File '/data/maarthi/Galaxy/Test/galaxy-dist/eggs/Paste-1.7.5.1-py2.6.egg/paste/httpexceptions.py', line 633 in __call__<br>&nbsp; return self.application(environ, start_response)<br>File '/data/maarthi/Galaxy/Test/galaxy-dist/lib/galaxy/web/framework/base.py', line 132 in __call__<br>
&nbsp; return self.handle_request( environ, start_response )<br>File '/data/maarthi/Galaxy/Test/galaxy-dist/lib/galaxy/web/framework/base.py', line 190 in handle_request<br>&nbsp; body = method( trans, **kwargs )<br>File '/data/maarthi/Galaxy/Test/galaxy-dist/lib/galaxy/web/framework/__init__.py', line 78 in decorator<br>
&nbsp; return to_json_string( func( self, trans, *args, **kwargs ) )<br>File '/data/maarthi/Galaxy/Test/galaxy-dist/lib/galaxy/webapps/galaxy/api/genomes.py', line 42 in show<br>&nbsp; rval = self.app.genomes.chroms( trans, dbkey=id, num=num, chrom=chrom, low=low )<br>
File '/data/maarthi/Galaxy/Test/galaxy-dist/lib/galaxy/visualization/genomes.py', line 292 in chroms<br>&nbsp; rval = genome.to_dict( num=num, chrom=chrom, low=low )<br>File '/data/maarthi/Galaxy/Test/galaxy-dist/lib/galaxy/visualization/genomes.py', line 153 in to_dict<br>
&nbsp; chroms[ fields[0] ] = int( fields[1] )<br>IndexError: list index out of range<br><br><br>CGI Variables<br>-------------<br>&nbsp; CONTENT_LENGTH: '0'<br>&nbsp; HTTP_ACCEPT: 'application/json, text/javascript, */*; q=0.01'<br>
&nbsp; HTTP_ACCEPT_ENCODING: 'gzip, deflate'<br>&nbsp; HTTP_ACCEPT_LANGUAGE: 'en-US,en;q=0.5'<br>&nbsp; HTTP_CONNECTION: 'keep-alive'<br>&nbsp; HTTP_COOKIE: 'galaxysession=c6ca0ddb55be603abc74375a63eca6a53211ad8efeb084140a6e95d9de0824b221b12b4bbc465351'<br>
&nbsp; HTTP_HOST: '<a href="http://127.0.0.1:8081">127.0.0.1:8081</a>'<br>&nbsp; HTTP_REFERER: '<a href="http://127.0.0.1:8081/visualization/trackster">http://127.0.0.1:8081/visualization/trackster</a>'<br>&nbsp; HTTP_USER_AGENT: 'Mozilla/5.0 (X11; Linux x86_64; rv:24.0) Gecko/20100101 Firefox/24.0'<br>
&nbsp; HTTP_X_REQUESTED_WITH: 'XMLHttpRequest'<br>&nbsp; PATH_INFO: '/api/genomes/PF3D7'<br>&nbsp; QUERY_STRING: 'low=0&amp;num=100'<br>&nbsp; REMOTE_ADDR: '127.0.0.1'<br>&nbsp; REQUEST_METHOD: 'GET'<br>&nbsp; SERVER_NAME: '0.0.0.0'<br>
&nbsp; SERVER_PORT: '8081'<br>&nbsp; SERVER_PROTOCOL: 'HTTP/1.1'<br><br><br>WSGI Variables<br>--------------<br>&nbsp; application: &lt;paste.recursive.RecursiveMiddleware object at 0x6b37cd0&gt;<br>&nbsp; is_api_request: True<br>
&nbsp; paste.cookies: (&lt;SimpleCookie: galaxysession='c6ca0ddb55be603abc74375a63eca6a53211ad8efeb084140a6e95d9de0824b221b12b4bbc465351'&gt;, 'galaxysession=c6ca0ddb55be603abc74375a63eca6a53211ad8efeb084140a6e95d9de0824b221b12b4bbc465351')<br>
&nbsp; paste.expected_exceptions: [&lt;class 'paste.httpexceptions.HTTPException'&gt;]<br>&nbsp; paste.httpexceptions: &lt;paste.httpexceptions.HTTPExceptionHandler object at 0x748eed0&gt;<br>&nbsp; paste.httpserver.thread_pool: &lt;paste.httpserver.ThreadPool object at 0x795c310&gt;<br>
&nbsp; paste.parsed_querystring: ([('low', '0'), ('num', '100')], 'low=0&amp;num=100')<br>&nbsp; paste.recursive.forward: &lt;paste.recursive.Forwarder from /&gt;<br>&nbsp; paste.recursive.include: &lt;paste.recursive.Includer from /&gt;<br>
&nbsp; paste.recursive.include_app_iter: &lt;paste.recursive.IncluderAppIter from /&gt;<br>&nbsp; paste.recursive.script_name: ''<br>&nbsp; paste.throw_errors: True<br>&nbsp; request_id: 'c1be491ec06811e39ed60025905a9e10'<br>
&nbsp; webob._parsed_query_vars: (MultiDict([('low', '0'), ('num', '100')]), 'low=0&amp;num=100')<br>&nbsp; wsgi process: 'Multithreaded'<br>------------------------------------------------------------<br>
</div></div>
</div></div>
Jennifer Jackson | 8 Apr 20:53 2014
Picon

Re: Filtering PhiX

Hi Scott,

Sorry to hear that you are having trouble. These are exact match hits to both? Contamination isn't out of the question with public databases, but I would start with filtering results first to see if that helps. If you still have concerns, a test versus the line-command version is the definitive answer.

As you may have seen on the public Galaxy instance, the Megablast tool happens to have the ' phiX174' genome as a specific target, so you could use that. Most NGS mappers have a custom reference database option (however not Megablast, for resource reasons) and a local/cloud Galaxy can be configured to use any Galaxy-wrapped mapper (there are many, check the tool shed). Combined, these provide many options.

Please send "reply-all" to keep questions on list going forward. Thanks!

Jen
Galaxy team

On 4/8/14 10:26 AM, Scott Tighe wrote:
Jennifer

Not in the case of Megablast. So sounds like there is no PhiX filter. Also I noticed that when I selected megablast, all the reads went to Bovine, but when I hand selected from galaxy a bunch of the sequences, that blasted (using NR) to Pseudomonas and other bacteria which is correct. I think your Megablast is not working properly.



Scott

Scott Tighe
Senior Core Laboratory Research Staff
Advanced Genome Technologies Core
NextGen Sequencing/Flow Cytometry
University of Vermont and Vermont Cancer Center
149 Beaumont ave
Health Science Research Facility 303/305
Burlington Vermont 05405
802-656-2482 (AGTC)

On 4/8/2014 10:23 AM, Jennifer Jackson wrote:
Hi Scott,

This genome is available in most mapping tools, so a positive match could be used to identify the control. But if you just want to leave it behind, control should fall out during mapping against the sample's target genome (if available).

Best,

Jen
Galaxy team

On 4/4/14 12:33 PM, Scott Tighe wrote:
Dear Team Galaxy

Is there a simple way to filter PhiX control from a sample set?

S




-- Jennifer Hillman-Jackson http://galaxyproject.org
<div>
    Hi Scott,<br><br>
    Sorry to hear that you are having trouble. These are exact match
    hits to both? Contamination isn't out of the question with public
    databases, but I would start with filtering results first to see if
    that helps. If you still have concerns, a test versus the
    line-command version is the definitive answer. <br><br>
    As you may have seen on the public Galaxy instance, the Megablast
    tool happens to have the '

    phiX174' genome as a specific target, so you could use that. Most
    NGS mappers have a custom reference database option (however not
    Megablast, for resource reasons) and a local/cloud Galaxy can be
    configured to use any Galaxy-wrapped mapper (there are many, check
    the tool shed). Combined, these provide many options. <br><br>
    Please send "reply-all" to keep questions on list going forward.
    Thanks!<br><br>
    Jen<br>
    Galaxy team<br><br><div class="moz-cite-prefix">On 4/8/14 10:26 AM, Scott Tighe wrote:<br>
</div>
    <blockquote cite="mid:53443156.3020500@..." type="cite">Jennifer
      <br><br>
      Not in the case of Megablast. So sounds like there is no PhiX
      filter. Also I noticed that when I selected megablast, all the
      reads went to Bovine, but when I hand selected from galaxy a bunch
      of the sequences, that blasted (using NR) to Pseudomonas and other
      bacteria which is correct. I think your Megablast is not working
      properly.
      <br><br><br><br>
      Scott
      <br><br>
      Scott Tighe
      <br>
      Senior Core Laboratory Research Staff
      <br>
      Advanced Genome Technologies Core
      <br>
      NextGen Sequencing/Flow Cytometry
      <br>
      University of Vermont and Vermont Cancer Center
      <br>
      149 Beaumont ave
      <br>
      Health Science Research Facility 303/305
      <br>
      Burlington Vermont 05405
      <br>
      802-656-2482 (AGTC)
      <br><br>
      On 4/8/2014 10:23 AM, Jennifer Jackson wrote:
      <br><blockquote type="cite">Hi Scott,
        <br><br>
        This genome is available in most mapping tools, so a positive
        match could be used to identify the control. But if you just
        want to leave it behind, control should fall out during mapping
        against the sample's target genome (if available).
        <br><br>
        Best,
        <br><br>
        Jen
        <br>
        Galaxy team
        <br><br>
        On 4/4/14 12:33 PM, Scott Tighe wrote:
        <br><blockquote type="cite">Dear Team Galaxy
          <br><br>
          Is there a simple way to filter PhiX control from a sample
          set?
          <br><br>
          S
          <br><br>
</blockquote>
        <br>
</blockquote>
      <br>
</blockquote>
    <br>-- 
Jennifer Hillman-Jackson
<a class="moz-txt-link-freetext" href="http://galaxyproject.org">http://galaxyproject.org</a>
  </div>
Picon

Cuffdif output NOTEST

Dear all,

I have Illumina RNAseq data and want to look for differences in gene expression between male and female rats and transgenic vs. wildtype; for each condition I have triplicates. I mapped with TopHat for Illumina, using the reference genome rn5 and default settings. I did Cuffdiff afterwards and used the GTF-file Rattus norvegicus.Rnor_5.0.72.gtf as transcript. As result I got no significant changes in expression and it always says "NO TEST" (or sometimes "LOW DATA"). I found that lowering or raising the -c option might control the cuffdiff behavior, but I do not know what it is and how to control it. Can you explain me how to do it? And would you advise me to use another transcript for Cuffdiff? And when yes, where can I get it?

Lots of questions. Thanks in advance for your answer.

Best,
Meike
<div>
<div>Dear all,<br><br>
I have Illumina RNAseq data and want to look for differences in gene expression between male and female rats and transgenic vs. wildtype; for each condition I have triplicates. I mapped with TopHat for Illumina, using the reference genome rn5 and default settings.
 I did Cuffdiff afterwards and used the GTF-file Rattus norvegicus.Rnor_5.0.72.gtf as transcript. As result I got no significant changes in expression and it always says "NO TEST" (or sometimes "LOW DATA"). I found that lowering or raising the -c option might
 control the cuffdiff behavior, but I do not know what it is and how to control it. Can you explain me how to do it? And would you advise me to use another transcript for Cuffdiff? And when yes, where can I get it?<br><br>
Lots of questions. Thanks in advance for your answer.<br><br>
Best,<br>
Meike<br>
</div>
</div>

Gmane