Escaped HTML show in import-workflow red message

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Escaped HTML show in import-workflow red message

Peter Cock
Hi all,

I just imported a workflow and noticed the following glitch with the
red message shown to the user about missing tools - the escaped HTML
is show to the user (ampersand lt semi-colon etc).

Specifically, I imported
http://www.myexperiment.org/workflows/4601.html from Bjoern.

Using the current v15.03 release, specifically:

$ hg log | head
changeset:   17050:6395e7035143
tag:         tip
parent:      17049:708cab19708d
parent:      17048:28113eeee212
user:        Nate Coraor <[hidden email]>
date:        Mon Mar 16 22:50:21 2015 -0400
summary:     Merge v15.03.1 to default

Peter

Red message:

Workflow Finding 3 genes close to each other (imported from uploaded
file) imported successfully. The workflow requires the following tools
that are not available in this Galaxy instance.You can likely install
the required tools from one of the Galaxy tool sheds listed below.
Tool name Compute, id
toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/1.1.0,
version 1.1.0
Tool name Intersect, id
toolshed.g2.bx.psu.edu/repos/devteam/intersect/gops_intersect_1/0.0.1,
version 0.0.1
Tool name Intersect, id
toolshed.g2.bx.psu.edu/repos/devteam/intersect/gops_intersect_1/1.0.0,
version 1.0.0

&lt;a href=&#34;http://toolshed.g2.bx.psu.edu/repository/find_tools?galaxy_url=http://ppserver/galaxy/&amp;tool_id=toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/1.1.0,toolshed.g2.bx.psu.edu/repos/devteam/intersect/gops_intersect_1/0.0.1,toolshed.g2.bx.psu.edu/repos/devteam/intersect/gops_intersect_1/1.0.0,&#34;&gt;Galaxy
main tool shed&lt;/a&gt;
&lt;a href=&#34;http://testtoolshed.g2.bx.psu.edu/repository/find_tools?galaxy_url=http://ppserver/galaxy/&amp;tool_id=toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/1.1.0,toolshed.g2.bx.psu.edu/repos/devteam/intersect/gops_intersect_1/0.0.1,toolshed.g2.bx.psu.edu/repos/devteam/intersect/gops_intersect_1/1.0.0,&#34;&gt;Galaxy
test tool shed&lt;/a&gt;
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Re: Escaped HTML show in import-workflow red message

Peter Cock
Marten has added this to an existing issue - over zealous
over escaping due to a security fix:

https://trello.com/c/oX6i51Mn/2298-back-off-over-escaping

Thanks,

Peter

On Wed, Apr 8, 2015 at 5:13 PM, Peter Cock <[hidden email]> wrote:

> Hi all,
>
> I just imported a workflow and noticed the following glitch with the
> red message shown to the user about missing tools - the escaped HTML
> is show to the user (ampersand lt semi-colon etc).
>
> Specifically, I imported
> http://www.myexperiment.org/workflows/4601.html from Bjoern.
>
> Using the current v15.03 release, specifically:
>
> $ hg log | head
> changeset:   17050:6395e7035143
> tag:         tip
> parent:      17049:708cab19708d
> parent:      17048:28113eeee212
> user:        Nate Coraor <[hidden email]>
> date:        Mon Mar 16 22:50:21 2015 -0400
> summary:     Merge v15.03.1 to default
>
> Peter
>
> Red message:
>
> Workflow Finding 3 genes close to each other (imported from uploaded
> file) imported successfully. The workflow requires the following tools
> that are not available in this Galaxy instance.You can likely install
> the required tools from one of the Galaxy tool sheds listed below.
> Tool name Compute, id
> toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/1.1.0,
> version 1.1.0
> Tool name Intersect, id
> toolshed.g2.bx.psu.edu/repos/devteam/intersect/gops_intersect_1/0.0.1,
> version 0.0.1
> Tool name Intersect, id
> toolshed.g2.bx.psu.edu/repos/devteam/intersect/gops_intersect_1/1.0.0,
> version 1.0.0
>
> &lt;a href=&#34;http://toolshed.g2.bx.psu.edu/repository/find_tools?galaxy_url=http://ppserver/galaxy/&amp;tool_id=toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/1.1.0,toolshed.g2.bx.psu.edu/repos/devteam/intersect/gops_intersect_1/0.0.1,toolshed.g2.bx.psu.edu/repos/devteam/intersect/gops_intersect_1/1.0.0,&#34;&gt;Galaxy
> main tool shed&lt;/a&gt;
> &lt;a href=&#34;http://testtoolshed.g2.bx.psu.edu/repository/find_tools?galaxy_url=http://ppserver/galaxy/&amp;tool_id=toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/1.1.0,toolshed.g2.bx.psu.edu/repos/devteam/intersect/gops_intersect_1/0.0.1,toolshed.g2.bx.psu.edu/repos/devteam/intersect/gops_intersect_1/1.0.0,&#34;&gt;Galaxy
> test tool shed&lt;/a&gt;
___________________________________________________________
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:
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To search Galaxy mailing lists use the unified search at:
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