| Previous changeset 17:e7d3dc3e0ec9 (2016-06-15) Next changeset 19:e541089245ba (2016-09-01) |
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Commit message:
planemo upload for repository https://github.com/portiahollyoak/Tools commit edf843bf10fa262f075980626a9201078f868757 |
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modified:
temp.xml tool_dependencies.xml |
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removed:
scripts/families scripts/fbtis |
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| diff -r e7d3dc3e0ec9 -r e198b686bfe4 scripts/families --- a/scripts/families Wed Jun 15 10:30:06 2016 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
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| b'@@ -1,5556 +0,0 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| diff -r e7d3dc3e0ec9 -r e198b686bfe4 scripts/fbtis --- a/scripts/fbtis Wed Jun 15 10:30:06 2016 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| b'@@ -1,5556 +0,0 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FBti0060670\n-FBti0060671\n-FBti0060628\n-FBti0060713\n-FBti0060218\n-FBti0060221\n-FBti0060666\n-FBti0060476\n-FBti0060553\n-FBti0060477\n-FBti0060691\n-FBti0060478\n-FBti0060667\n-FBti0060485\n-FBti0060554\n-FBti0060486\n-FBti0060693\n-FBti0060692\n-FBti0060578\n-FBti0060709\n-FBti0060579\n-FBti0060204\n-FBti0060220\n-FBti0019708\n-FBti0019709\n-FBti0019710\n-FBti0060668\n-FBti0019711\n-FBti0060555\n-FBti0060487\n-FBti0019712\n-FBti0019713\n-FBti0060729\n-FBti0060710\n-FBti0019715\n-FBti0019714\n-FBti0060177\n-FBti0060178\n-FBti0060556\n-FBti0060593\n-FBti0059649\n-FBti0059699\n-FBti0059650\n-FBti0019718\n-FBti0060669\n-FBti0019720\n-FBti0061318\n-FBti0019721\n-FBti0061140\n-FBti0061141\n-FBti0061142\n-FBti0019722\n-FBti0061299\n-FBti0061143\n-FBti0061144\n-FBti0061145\n-FBti0061147\n-FBti0061148\n-FBti0061317\n-FBti0019723\n-FBti0061150\n-FBti0061152\n-FBti0060505\n-FBti0019724\n-FBti0061164\n-FBti0061165\n-FBti0059709\n-FBti0019726\n-FBti0061166\n-FBti0061167\n-FBti0059708\n-FBti0019729\n-FBti0019731\n-FBti0061245\n-FBti0061329\n-FBti0060506\n-FBti0019732\n-FBti0019733\n-FBti0061271\n-FBti0061168\n-FBti0019734\n-FBti0061169\n-FBti0061170\n-FBti0061171\n-FBti0061189\n-FBti0061190\n-FBti0061191\n-FBti0061192\n-FBti0019735\n-FBti0061193\n-FBti0061194\n-FBti0061195\n-FBti0061196\n-FBti0060508\n-FBti0061197\n-FBti0019736\n-FBti0061319\n-FBti0061198\n-FBti0061219\n-FBti0061753\n-FBti0061330\n-FBti0061331\n-FBti0061332\n-FBti0061333\n-FBti0061747\n-FBti0061334\n-FBti0061777\n-FBti0019737\n-FBti0061748\n-FBti0061778\n-FBti0061335\n-FBti0019738\n-FBti0019739\n-FBti0061350\n-FBti0019740\n-FBti0061749\n-FBti0061351\n-FBti0061352\n-FBti0019741\n-FBti0061750\n-FBti0061752\n-FBti0061720\n-FBti0061754\n-FBti0019742\n-FBti0061751\n-FBti0061721\n-FBti0019743\n-FBti0019744\n-FBti0061353\n-FBti0061354\n-FBti0061810\n-FBti0060519\n-FBti0060518\n-FBti0061355\n-FBti0060516\n-FBti0061356\n-FBti0061719\n-FBti0019745\n-FBti0061357\n-FBti0061667\n-FBti0061668\n-FBti0061669\n-FBti0019746\n-FBti0061670\n-FBti0061671\n-FBti0061672\n-RR48358_transposable_element\n-FBti0019747\n-FBti0061779\n-FBti0061781\n-FBti0061699\n-FBti0060517\n-FBti0061673\n-FBti0061674\n-FBti0061675\n-FBti0019748\n-FBti0061698\n-FBti0061812\n-FBti0061813\n-FBti0061846\n-FBti0061847\n-FBti0061848\n-FBti0062474\n-FBti0060520\n-FBti0062415\n-FBti0062436\n-FBti0061849\n-FBti0062349\n-FBti0060531\n-FBti0061850\n-FBti0060529\n-FBti0062413\n-FBti0062350\n-FBti0061851\n-FBti0061852\n-FBti0062386\n-FBti0061853\n-FBti0061877\n-FBti0061878\n-FBti0061879\n-FBti0062477\n-FBti0062479\n-FBti0062382\n-FBti0060521\n-FBti0061880\n-FBti0062410\n-FBti0062443\n-FBti0061881\n-FBti0062411\n-FBti0061882\n-FBti0062440\n-FBti0062351\n-FBti0062384\n-FBti0061883\n-FBti0062478\n-FBti0061884\n-FBti0062385\n-FBti0061885\n-FBti0061811\n-FBti0062416\n-FBti0061886\n-FBti0061911\n-FBti0061912\n-FBti0061913\n-FBti0062417\n-FBti0062437\n-FBti0061914\n-FBti0061915\n-FBti0062412\n-FBti0062441\n-FBti0062352\n-FBti0062418\n-FBti0062438\n-FBti0061916\n-FBti0061917\n-FBti0061918\n-FBti0061919\n-FBti0061920\n-FBti0062353\n-FBti0062480\n-FBti0062435\n-FBti0062439\n-FBti0062476\n-FBti0061940\n-FBti0061941\n-FBti0061942\n-FBti0061943\n-FBti0062383\n-FBti0061944\n-FBti0062347\n-FBti0061945\n-FBti0062442\n-FBti0061946\n-FBti0062414\n-FBti0061947\n-RR48316_transposable_element\n-RR43222_transposable_element\n-RR48361_transposable_element\n-RR43316_transposable_element\n-RR48328_transposable_element\n-RR48365_transposable_element\n-RR48308_transposable_element\n-RR48330_transposable_element\n-RR45003_transposable_element\n' |
| b |
| diff -r e7d3dc3e0ec9 -r e198b686bfe4 temp.xml --- a/temp.xml Wed Jun 15 10:30:06 2016 -0400 +++ b/temp.xml Wed Aug 17 11:49:25 2016 -0400 |
| b |
| @@ -1,4 +1,4 @@ -<tool id ="run_TEMP" name="TEMP" version="0.2.0"> +<tool id ="run_TEMP" name="TEMP" version="0.2.1"> <description></description> <requirements> <!-- The following are classical toolshed packages and should be removed @@ -39,9 +39,9 @@ -t "$reference2bit" -f "$median_insertsize" -c \${GALAXY_SLOTS:-2} && - zip archive.zip *insertion* *excision* *absence* && mv archive.zip $archive && mv alignment.insertion.refined.bp.summary $insertion_summary && - mv alignment.absence.refined.bp.summary $absence_summary + mv alignment.absence.refined.bp.summary $absence_summary && + tar -czf archive.tar.gz *insertion* *excision* *absence* && mv archive.tar.gz $archive ]]></command> <inputs> <param format="bam" name="alignment" type="data" label="Alignment bam file"/> @@ -56,7 +56,7 @@ <outputs> <data format="bed" type="data" name="insertion_summary" label="${alignment.element_identifier} Insertions" /> <data format="bed" type="data" name="absence_summary" label="${alignment.element_identifier} Absences" /> - <data format="zip" type="data" name="archive" label="${alignment.element_identifier} Compressed output files" /> + <data format="tar" type="data" name="archive" label="${alignment.element_identifier} Compressed output files" /> </outputs> <tests> <test> |
| b |
| diff -r e7d3dc3e0ec9 -r e198b686bfe4 tool_dependencies.xml --- a/tool_dependencies.xml Wed Jun 15 10:30:06 2016 -0400 +++ b/tool_dependencies.xml Wed Aug 17 11:49:25 2016 -0400 |
| b |
| @@ -7,12 +7,12 @@ <repository changeset_revision="35f117d7396b" name="package_perl_5_18" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> </package> <package name="bedtools" version="2.24"> - <repository changeset_revision="39b86c1e267d" name="package_bedtools_2_24" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> + <repository changeset_revision="3416a1d4a582" name="package_bedtools_2_24" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> </package> <package name="bwa" version="0.7.12"> <repository changeset_revision="6af9b24ddeee" name="package_bwa_0_7_12" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> </package> <package name="samtools" version="0.1.19"> - <repository changeset_revision="96aab723499f" name="package_samtools_0_1_19" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> + <repository changeset_revision="c9bd782f5342" name="package_samtools_0_1_19" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> </package> </tool_dependency> |