galaxy

phastOdds

Modified tools using the <select_options> tag approach for dynamic options to use the new <select> tag approach. I modified the microbial import tool to use the older <select_options> approach last week and will modify it to use the new <select> approach next week. A few tools still use the oldest dynamic_options attribute approach, but modifying them to use the new <select> tag will be trivial. I'll do this when I return.

2007-11-21 18:48:37 +00:00

extract_GFF_Features.py

Changed tool initialization error handling (from stack traceback to simple error message.)

2007-10-17 14:42:35 +00:00

extract_GFF_Features.xml

Modified tools using the <select_options> tag approach for dynamic options to use the new <select> tag approach. I modified the microbial import tool to use the older <select_options> approach last week and will modify it to use the new <select> approach next week. A few tools still use the oldest dynamic_options attribute approach, but modifying them to use the new <select> tag will be trivial. I'll do this when I return.

2007-11-21 18:48:37 +00:00

extractAxt_wrapper.pl

Remove last references to /depot/data1/cache.

2007-01-03 19:36:07 +00:00

extractAxt_wrapper.xml

Modified tools using the <select_options> tag approach for dynamic options to use the new <select> tag approach. I modified the microbial import tool to use the older <select_options> approach last week and will modify it to use the new <select> approach next week. A few tools still use the oldest dynamic_options attribute approach, but modifying them to use the new <select> tag will be trivial. I'll do this when I return.

2007-11-21 18:48:37 +00:00

fasta-subseq-wrapper_code.py

Extracting Genomic DNA can now result in an interval file with the

2007-09-25 16:12:37 +00:00

fasta-subseq-wrapper.pl

Extracting Genomic DNA can now result in an interval file with the

2007-09-25 16:12:37 +00:00

fasta-subseq-wrapper.xml

Extracting Genomic DNA can now result in an interval file with the

2007-09-25 16:12:37 +00:00

genebed_maf_to_fasta.py

More MAF tools now have better behavior when no species are selected.

2007-11-29 18:13:48 +00:00

genebed_maf_to_fasta.xml

More dynamic options cleanup. Eliminated the "tool_type" attribute, among other cleanup chores.

2007-11-30 20:08:21 +00:00

interval2maf_pairwise.py

Improve error message on maf tools, telling users where to go to set

2007-09-20 20:39:05 +00:00

interval2maf_pairwise.xml

Modified all tools to use the new <options> tag for dynamic select lists. Completely eliminated the <select_options> tag approach. With the exception of find_clusters_mysql, the old dynamic_options approach is not being used by any tool, although dynamic_options is still supported in parameters.py.

2007-11-29 17:04:42 +00:00

interval2maf.py

Minor update to interval2maf.py display of error messages.

2007-11-16 17:39:49 +00:00

interval2maf.xml

Modified tools using the <select_options> tag approach for dynamic options to use the new <select> tag approach. I modified the microbial import tool to use the older <select_options> approach last week and will modify it to use the new <select> approach next week. A few tools still use the oldest dynamic_options attribute approach, but modifying them to use the new <select> tag will be trivial. I'll do this when I return.

2007-11-21 18:48:37 +00:00

interval_maf_to_merged_fasta.py

More MAF tools now have better behavior when no species are selected.

2007-11-29 18:13:48 +00:00

interval_maf_to_merged_fasta.xml

More dynamic options cleanup. Eliminated the "tool_type" attribute, among other cleanup chores.

2007-11-30 20:08:21 +00:00

twoBitToFa

Tool to extract genomic DNA from unassembled sequences.

2007-05-29 19:50:25 +00:00

twoBitToFa_wrapper.py

Get path for twoBitToFa binary from path of executing script.

2007-10-05 00:47:35 +00:00

twoBitToFa_wrapper.xml

Python is used to run python scripts.

2007-10-04 23:31:38 +00:00