jmchilton

Traceback (most recent call last):
  File "/home/galaxy/shed_tools/toolshed.g2.bx.psu.edu/repos/devteam/data_manager_fetch_genome_all_fasta/2ebc856bce29/data_manager_fetch_genome_all_fasta/data_manager/data_manager_fetch_genome_all_fasta.py", line 350, in <module>
    if __name__ == "__main__": main()
  File "/home/galaxy/shed_tools/toolshed.g2.bx.psu.edu/repos/devteam/data_manager_fetch_genome_all_fasta/2ebc856bce29/data_manager_fetch_genome_all_fasta/data_manager/data_manager_fetch_genome_all_fasta.py", line 345, in main
    REFERENCE_SOURCE_TO_DOWNLOAD[ params['param_dict']['reference_source']['reference_source_selector'] ]( data_manager_dict, params, target_directory, dbkey, sequence_id, sequence_name )
  File "/home/galaxy/shed_tools/toolshed.g2.bx.psu.edu/repos/devteam/data_manager_fetch_genome_all_fasta/2ebc856bce29/data_manager_fetch_genome_all_fasta/data_manager/data_manager_fetch_genome_all_fasta.py", line 186, in download_from_ucsc
    path_contents = _get_files_in_ftp_path( ftp, ucsc_path )
  File

jmchilton

<display id="protvis_mzml" version="1.0.0" name="display with ProtVis">
    <dynamic_links from_file="tool-data/protk_display_site.txt" skip_startswith="#" id="0" name="0">
        <!-- Define parameters by column from file -->
        <dynamic_param name="site_id" value="0"/>
        <dynamic_param name="site_url" value="1"/>
        <!-- We define url and params as normal, but values defined in dynamic_param are available by specified name -->
        <url target_frame="galaxy_main">${site_url}/init_url?url=${mzml_file.qp}&amp;type=mzml${peptide_param.value}${spectrum_param.value}</url>
        <param type="data" name="mzml_file" url="galaxy_${DATASET_HASH}.mzml" />
        <param type="template" name="peptide" allow_override="True" />
        <param type="template" name="peptide_param" strip="True">