diff --git a/tools/aarnetfilesender/README.md b/tools/aarnetfilesender/README.md index 2a6eb676..69576af3 100644 --- a/tools/aarnetfilesender/README.md +++ b/tools/aarnetfilesender/README.md @@ -1,3 +1,26 @@ -# AARNet FileSender +ENA-upload-cli wrapper +====================== -This is a wrapper for AARNet's FileSender, using the FileSender CLI tool. +Galaxy wrapper of the AARNET +`filesender `__. + +Setting up credentials on Galaxy +-------------------------------- + +The admin can enable users to set their own credentials +for this tool. To enable it, make sure the file +``config/user_preferences_extra_conf.yml`` has the following section: + +.. code-block:: yaml + + aarnet_filesender_account: + description: AARNet FileSender Account Info + inputs: + - name: username + label: AARNet FileSender Username + type: text + required: False + - name: apikey + label: AARNet FileSender API Key + type: password + required: False diff --git a/tools/aarnetfilesender/filesender.xml b/tools/aarnetfilesender/filesender.xml index 20f22659..e6b94d01 100644 --- a/tools/aarnetfilesender/filesender.xml +++ b/tools/aarnetfilesender/filesender.xml @@ -1,23 +1,19 @@ - - - - - filesendercli - + + transfer files to AARnet's FileSender Service + + macros.xml + + + $output 2>&1 - ]]> - + + + + + + + + + + + + + + **What it does** Send dataset(s) from Galaxy to anyone via AARNet's FileSender service. diff --git a/tools/aarnetfilesender/test-data/output.log b/tools/aarnetfilesender/test-data/output.log new file mode 100644 index 00000000..09330a39 --- /dev/null +++ b/tools/aarnetfilesender/test-data/output.log @@ -0,0 +1,3 @@ +Uploading: Xnatutils on data 2424: log 100% +Xnatutils on data 2424: log complete +Upload Complete diff --git a/tools/aarnetfilesender/test-data/summary_statistics.txt b/tools/aarnetfilesender/test-data/summary_statistics.txt new file mode 100644 index 00000000..9fe8720a --- /dev/null +++ b/tools/aarnetfilesender/test-data/summary_statistics.txt @@ -0,0 +1,5 @@ +Core genes (99% <= strains <= 100%) 251 +Soft core genes (95% <= strains < 99%) 0 +Shell genes (15% <= strains < 95%) 0 +Cloud genes (0% <= strains < 15%) 0 +Total genes (0% <= strains <= 100%) 251 \ No newline at end of file