Vipin TS wrote:
I incorporated *NGS: QC and manipulation* tool tracks to my galaxy server. But I have been failing to run those tools in my local instance. From the error message I found that few of the file/script are missing in the tool directory.
Here is the list of tools shows error message while running:
Quality format converter ('fastq_quality_converter' command not found) Compute quality statistics ('fastx_quality_stats' command not found) Draw quality score boxplot ('fastq_quality_boxplot_graph.sh' not found) Draw nucleotides distribution chart ('fastx_nucleotide_distribution_graph.sh' not found)
In the Galaxy-central source repository I am not finding such a file/script associated with these tools (http://bitbucket.org/galaxy/galaxy-central/src/tip/tools/fastx_toolkit/). In the main galaxy server these tools are working perfectly.
Please let me know if I did any mistake from these observations.
Hi Vipin, We're in the process of updating our dependency information: http://bitbucket.org/galaxy/galaxy-central/wiki/ToolDependencies For these tools, you'll need to install the FASTX-Toolkit, available here: http://hannonlab.cshl.edu/fastx_toolkit/ --nate