diff tools/ncbi_blast_plus/ncbi_blastp_wrapper.xml @ 14:2fe07f50a41e draft

Uploaded v0.1.01 - Requires blastdbd datatype (blast_datatypes v0.0.19). Support for makeprofiledb to create protein domain databases and use them in RPS-BLAST and RPS-TBLASTN. Tools now support GI and SeqID filters, and embed the citations.

--- a/tools/ncbi_blast_plus/ncbi_blastp_wrapper.xml	Fri Mar 14 07:40:46 2014 -0400
+++ b/tools/ncbi_blast_plus/ncbi_blastp_wrapper.xml	Mon Dec 01 05:59:16 2014 -0500
@@ -1,4 +1,4 @@
-<tool id="ncbi_blastp_wrapper" name="NCBI BLAST+ blastp" version="0.1.00">
+<tool id="ncbi_blastp_wrapper" name="NCBI BLAST+ blastp" version="0.1.01">
     <description>Search protein database with protein query sequence(s)</description>
     <!-- If job splitting is enabled, break up the query file into parts -->
     <parallelism method="multi" split_inputs="query" split_mode="to_size" split_size="1000" merge_outputs="output1" />
@@ -22,6 +22,7 @@
 @ADVANCED_OPTIONS@
 ##Ungapped disabled for now - see comments below
 ##$adv_opts.ungapped
+@ADV_ID_LIST_FILTER@
 ## End of advanced options:
 #end if
     </command>
@@ -52,6 +53,7 @@
             <param name="ungapped" type="boolean" label="Perform ungapped alignment only?" truevalue="-ungapped -comp_based_stats F" falsevalue="" checked="false" />
             -->
             <expand macro="input_parse_deflines" />
+            <expand macro="advanced_optional_id_files" />
         </expand>
     </inputs>
     <outputs>
@@ -144,4 +146,5 @@
 
 @REFERENCES@
     </help>
+    <expand macro="blast_citations" />    
 </tool>