Hi Xiaofei,

You should be able to install 1.1.3 by selecting revision 3 of sam_to_bam
from the "Preview and install" page (Admin -> Search and browse tool sheds
-> Galaxy main tool shed -> sam_to_bam -> Preview and install), and then
clicking "Install to Galaxy."

[image: Inline image 1]

You can tell what version of the tool it'll install by looking at the
"Valid tools" section of the "Contents of this repository" box.

--nate


On Thu, Apr 3, 2014 at 6:16 PM, Wang, Xiaofei <xfw...@ku.edu> wrote:

>  Dear there,
>
>  When I run CloudMap EMS Variant Density Mapping workflow (takes VCF of
> heterozygous and homozygous variants to subtract) (imported from uploaded
> file) on local Galaxy instance, I got this
>  , when I wanted to edit the workflow. Also, I got this
> The following tools are beinge executed with a different version from what
> was available when this workflow was last saved because the previous
> version is no longer available for use on this galaxy instance. To upgrade
> your workflow and dismiss this message simply edit the workflow and re-save
> it to update the stored tool version.
>
>    - toolshed.g2.bx.psu.edu/repos/devteam/sam_to_bam/sam_to_bam/1.1.2:
>    using version '1.1.2' instead of version '1.1.3' indicated in this 
> workflow.
>    - ,when I wanted to run the workflow.
>
>
>  I know it is the problem with version of SAM-to-BAM. But, when I
> searched the Tool sheds > Search and browse tool sheds, there is only
> version 1.1.4 for SAM-to-BAM. When I tried to edit the workflow from
> Workflow > ...> Edit, I did not find where could I change the version of
> SAM-to-BAM. When I clicked on SAM-to-BAM on the Workflow Canvas, it showed
> the version is 1.1.3 for it.
>
>  Could you tell me which version do I need exactly, and how to figure out
> this?
>
>  Thanks a lot!
>
>  Best,
>
>  Xiaofei
>
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<<inline: sam_to_bam_3.png>>

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