2:43 p.m.
Hi gentlemen,
I am currently struggling to create a custom package (to share via a toolshed) that would
include a tool definition file and the associated binary. Once installed, I can launch a
job but I get the following error message:
mytool.sh: line 14: mytool: unknown command
It seems that the PATH was not correctly set. What am I doing wrong ?
My directory tree in my package:
.
├── mytool.sh
├── mytool.xml
├── bin
│ └── mytool
└── tool_dependencies.xml
Here is my tool_dependencies.xml file content:
<?xml version="1.0"?>
<tool_dependency>
<package name="mytool" version="1.0">
<install version="1.0">
<actions>
<action type="set_environment">
<environment_variable name="PATH"
action="prepend_to">$INSTALL_DIR/bin</environment_variable>
</action>
</actions>
</install>
<readme>
</readme>
</package>
</tool_dependency>
Thank you,
AK
7:23 p.m.
I could be wrong but I think the <install> tag should have some sort
of download action - I don't think tools are actually stuck in
$INSTALL_DIR like this - $INSTALL_DIR is where you can move or compile
downloaded files to. You might want to try $REPOSITORY_INSTALL_DIR
instead of $INSTALL_DIR - but really if you are going to just stick an
application next to your tool wrapper like this (I would consider this
an anti-pattern) I would just set your PATH in mytool.sh and not worry
about the tool shed install stuff at all. Maybe add something like
PATH=`dirname $0`/bin:$PATH
export PATH
To the wrapper mytool.sh.
As I mentioned - I think bundling applications with tools like this is
something of an anti-pattern even if you can make it work. The best
practice here would be to try to separate packages with binaries from
repositories that contain tools and create a format "package_mytools"
repository that is just responsible for installing the binary mytool.
Hopefully this helps,
-John
On Tue, Dec 16, 2014 at 9:43 AM, KRESS Arnaud (ESP) <akress(a)unistra.fr> wrote:
Hi gentlemen,
I am currently struggling to create a custom package (to share via a toolshed) that would
include a tool definition file and the associated binary. Once installed, I can launch a
job but I get the following error message:
mytool.sh: line 14: mytool: unknown command
It seems that the PATH was not correctly set. What am I doing wrong ?
My directory tree in my package:
.
├── mytool.sh
├── mytool.xml
├── bin
│ └── mytool
└── tool_dependencies.xml
Here is my tool_dependencies.xml file content:
<?xml version="1.0"?>
<tool_dependency>
<package name="mytool" version="1.0">
<install version="1.0">
<actions>
<action type="set_environment">
<environment_variable name="PATH"
action="prepend_to">$INSTALL_DIR/bin</environment_variable>
</action>
</actions>
</install>
<readme>
</readme>
</package>
</tool_dependency>
Thank you,
AK
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John Chilton -
KRESS Arnaud (ESP)