After I follow the instructions of Installing Tools into Galaxy from Tool Shed,
what I get in installed tool shed repositories is installation status:Installed,missing tool dependencies.
But I have followed to change my code in config/galaxy.ini into
# Path to the directory in which tool dependencies are placed. This is used by
# the tool shed to install dependencies and can also be used by administrators
# to manually install or link to dependencies. For details, see:
# If this option is not set to a valid path, installing tools with dependencies
# from the Tool Shed will fail.
tool_dependency_dir = dependency_dir
and I have one document named dependency_dir in galaxy file.
then after I typed
$ echo $PATH
$ type bowtie
what I get is -bash: type: bowtie: not found.
I hope someone can help me,thank you