Well - this version does feature Sam's complete rewrite of the front
end for tools - so things will be pretty different.

Oddly though your tool loaded for me - can you open up your JavaScript
console and let me know if there are any errors?

-John

On Thu, Feb 26, 2015 at 10:14 AM, Pierre Lindenbaum
<pierre.lindenb...@univ-nantes.fr> wrote:
> On 02/26/2015 03:43 PM, John Chilton wrote:
>>
>> Sorry I wasn't clear about that - it hasn't reached galaxy-dist yet -
>> you can download the latest snapshot of 15.03 release (I believe it is
>> running on usegalaxy.org as of yesterday) via this link instead
>> https://bitbucket.org/galaxy/galaxy-central/get/release_15.03.zip.
>>
>> Also not need to escape $__tool_directory__  (so use
>> $__tool_directory__ instead of \$__tool_directory__).
>>
>> -John
>>
>
> thank you for your help John & Peter
>
> hum... is there anything new with this version about tool.xml ?. I can see
> my tool in the right menu but the main page is blank (no input fields)
>
>    127.0.0.1 - - [26/Feb/2015:16:09:07 +0200] "GET
>
> /tool_runner?tool_id=com.github.lindenb.jvarkit.tools.vcffilterjs.VCFFilterJS
>    HTTP/1.1" 200 - "http://127.0.0.1:8080/"; "Mozilla/5.0 (X11; Ubuntu;
>    Linux i686; rv:35.0) Gecko/20100101 Firefox/35.0"
>    127.0.0.1 - - [26/Feb/2015:16:09:17 +0200] "GET
>
> /tool_runner?tool_id=com.github.lindenb.jvarkit.tools.vcffilterjs.VCFFilterJS
>    HTTP/1.1" 200 - "http://127.0.0.1:8080/"; "Mozilla/5.0 (X11; Ubuntu;
>    Linux i686; rv:35.0) Gecko/20100101 Firefox/35.0"
>    127.0.0.1 - - [26/Feb/2015:16:09:27 +0200] "GET
>
> /tool_runner?tool_id=com.github.lindenb.jvarkit.tools.vcffilterjs.VCFFilterJS
>    HTTP/1.1" 200 - "http://127.0.0.1:8080/"; "Mozilla/5.0 (X11; Ubuntu;
>    Linux i686; rv:35.0) Gecko/20100101 Firefox/35.0"
>    127.0.0.1 - - [26/Feb/2015:16:09:28 +0200] "GET
>
> /tool_runner?tool_id=com.github.lindenb.jvarkit.tools.vcffilterjs.VCFFilterJS
>    HTTP/1.1" 200 - "http://127.0.0.1:8080/"; "Mozilla/5.0 (X11; Ubuntu;
>    Linux i686; rv:35.0) Gecko/20100101 Firefox/35.0"
>
>
> $ xmllint --format tools/jvarkit2/vcffilterjs.xml
> <?xml version="1.0"?>
> <tool hidden="false"
> id="com.github.lindenb.jvarkit.tools.vcffilterjs.VCFFilterJS"
> version="1.0.0" name="vcffilterjs">
>   <requirements>
>     <requirement type="binary">java</requirement>
>   </requirements>
>   <command><![CDATA[echo "dir=$__tool_directory__ ." > /tmp/error7.txt &&
> java -cp
> $__tool_directory__/commons-jexl-2.1.1.jar:$__tool_directory__/commons-logging-1.1.1.jar:$__tool_directory__/htsjdk-1.129.jar:$__tool_directory__/snappy-java-1.0.3-rc3.jar:$__tool_directory__/vcffilterjs.jar
> com.github.lindenb.jvarkit.tools.vcffilterjs.VCFFilterJS -e '${expression}'
> -o ${output} ${input}  2>> /tmp/error7.txt ]]></command>
>   <inputs>
>     <param format="vcf" name="input" type="data" label="VCF input"/>
>     <param name="expression" type="text" label="javascript expression">
>       <sanitizer>
>         <valid initial="string.printable">
>           <remove value="'"/>
>         </valid>
>       </sanitizer>
>     </param>
>   </inputs>
>   <outputs>
>     <data format="vcf" name="output"/>
>   </outputs>
>   <stdio>
>     <exit_code range="1:"/>
>     <exit_code range=":-1"/>
>   </stdio>
>   <help>Help</help>
> </tool>
>
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