# HG changeset patch
# User peterjc
# Date 1377097814 14400
# Node ID 36b2c2b5051e745858cd13ace1ab45e612e55489
# Parent  5f3cc82297717add72c7845f89dedf3d017b6d73
Uploaded v0.0.2 with updated tool versions, should fix header_lines warning from Filter1 tool.

diff -r 5f3cc8229771 -r 36b2c2b5051e ._secreted_protein_workflow.ga
Binary file ._secreted_protein_workflow.ga has changed
diff -r 5f3cc8229771 -r 36b2c2b5051e README.rst
--- a/README.rst	Tue Aug 20 07:37:19 2013 -0400
+++ b/README.rst	Wed Aug 21 11:10:14 2013 -0400
@@ -92,6 +92,19 @@
 installation (SignalP v3.0 and TMHMM v2.0).
 
 
+History
+=======
+
+======= ======================================================================
+Version Changes
+------- ----------------------------------------------------------------------
+v0.0.1  - Initial release to Tool Shed (May, 2013)
+        - Expanded README file to include example data
+v0.0.2  - Updated versions of the tools used, inclulding core Galaxy Filter
+          tool to avoid warning about new ``header_lines`` parameter.
+======= ======================================================================
+
+
 Developers
 ==========
 
diff -r 5f3cc8229771 -r 36b2c2b5051e secreted_protein_workflow.ga
--- a/secreted_protein_workflow.ga	Tue Aug 20 07:37:19 2013 -0400
+++ b/secreted_protein_workflow.ga	Wed Aug 21 11:10:14 2013 -0400
@@ -62,8 +62,8 @@
             }, 
             "tool_errors": null, 
             "tool_id": "signalp3", 
-            "tool_state": "{\"organism\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"fasta_file\": \"null\", \"chromInfo\": \"\\\"/opt/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\"\", \"truncate\": \"\\\"60\\\"\", \"__page__\": 0}", 
-            "tool_version": "0.0.8", 
+            "tool_state": "{\"__page__\": 0, \"truncate\": \"\\\"60\\\"\", \"chromInfo\": \"\\\"/opt/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\"\", \"fasta_file\": \"null\", \"organism\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"__rerun_remap_job_id__\": null}", 
+            "tool_version": "0.0.12", 
             "type": "tool", 
             "user_outputs": []
         }, 
@@ -104,7 +104,7 @@
             }, 
             "tool_errors": null, 
             "tool_id": "Filter1", 
-            "tool_state": "{\"__page__\": 0, \"cond\": \"\\\"c14=='Y' or c15=='S'\\\"\", \"chromInfo\": \"\\\"/opt/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\"\", \"input\": \"null\"}", 
+            "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"cond\": \"\\\"c14=='Y' or c15=='S'\\\"\", \"input\": \"null\", \"header_lines\": \"\\\"0\\\"\", \"chromInfo\": \"\\\"/opt/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\"\"}", 
             "tool_version": "1.1.0", 
             "type": "tool", 
             "user_outputs": []
@@ -152,8 +152,8 @@
             }, 
             "tool_errors": null, 
             "tool_id": "seq_filter_by_id", 
-            "tool_state": "{\"__page__\": 0, \"output_choice_cond\": \"{\\\"output_choice\\\": \\\"pos\\\", \\\"__current_case__\\\": 1}\", \"input_file\": \"null\", \"input_tabular\": \"null\", \"chromInfo\": \"\\\"/opt/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\"\", \"columns\": \"{\\\"__class__\\\": \\\"UnvalidatedValue\\\", \\\"value\\\": [\\\"1\\\"]}\"}", 
-            "tool_version": "0.0.1", 
+            "tool_state": "{\"__page__\": 0, \"output_choice_cond\": \"{\\\"output_choice\\\": \\\"pos\\\", \\\"__current_case__\\\": 1}\", \"input_file\": \"null\", \"__rerun_remap_job_id__\": null, \"input_tabular\": \"null\", \"chromInfo\": \"\\\"/opt/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\"\", \"columns\": \"{\\\"__class__\\\": \\\"UnvalidatedValue\\\", \\\"value\\\": [\\\"1\\\"]}\"}", 
+            "tool_version": "0.0.5", 
             "type": "tool", 
             "user_outputs": []
         }, 
@@ -187,8 +187,8 @@
             }, 
             "tool_errors": null, 
             "tool_id": "tmhmm2", 
-            "tool_state": "{\"__page__\": 0, \"fasta_file\": \"null\", \"chromInfo\": \"\\\"/opt/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\"\"}", 
-            "tool_version": "0.0.7", 
+            "tool_state": "{\"__page__\": 0, \"fasta_file\": \"null\", \"chromInfo\": \"\\\"/opt/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\"\", \"__rerun_remap_job_id__\": null}", 
+            "tool_version": "0.0.11", 
             "type": "tool", 
             "user_outputs": []
         }, 
@@ -229,7 +229,7 @@
             }, 
             "tool_errors": null, 
             "tool_id": "Filter1", 
-            "tool_state": "{\"__page__\": 0, \"cond\": \"\\\"c5== 0\\\"\", \"chromInfo\": \"\\\"/opt/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\"\", \"input\": \"null\"}", 
+            "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"cond\": \"\\\"c5== 0\\\"\", \"input\": \"null\", \"header_lines\": \"\\\"0\\\"\", \"chromInfo\": \"\\\"/opt/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\"\"}", 
             "tool_version": "1.1.0", 
             "type": "tool", 
             "user_outputs": []
@@ -279,8 +279,8 @@
             }, 
             "tool_errors": null, 
             "tool_id": "seq_filter_by_id", 
-            "tool_state": "{\"__page__\": 0, \"output_choice_cond\": \"{\\\"output_choice\\\": \\\"pos\\\", \\\"__current_case__\\\": 1}\", \"input_file\": \"null\", \"input_tabular\": \"null\", \"chromInfo\": \"\\\"/opt/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\"\", \"columns\": \"{\\\"__class__\\\": \\\"UnvalidatedValue\\\", \\\"value\\\": [\\\"1\\\"]}\"}", 
-            "tool_version": "0.0.1", 
+            "tool_state": "{\"__page__\": 0, \"output_choice_cond\": \"{\\\"output_choice\\\": \\\"pos\\\", \\\"__current_case__\\\": 1}\", \"input_file\": \"null\", \"__rerun_remap_job_id__\": null, \"input_tabular\": \"null\", \"chromInfo\": \"\\\"/opt/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\"\", \"columns\": \"{\\\"__class__\\\": \\\"UnvalidatedValue\\\", \\\"value\\\": [\\\"1\\\"]}\"}", 
+            "tool_version": "0.0.5", 
             "type": "tool", 
             "user_outputs": []
         }