Repository 'chira_quantify'
hg clone https://toolshed.g2.bx.psu.edu/repos/iuc/chira_quantify

Changeset 4:903f7a4cfbf0 (2020-03-20)
Previous changeset 3:f1ac3a1f01cf (2020-03-12) Next changeset 5:1fe9daabe09c (2020-04-06)
Commit message:
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/chira commit aafb8e5de9023eeddd7f4683909f418ef5aae086"
modified:
macros.xml
test-data/alignments.bed
test-data/segments.bed
b
diff -r f1ac3a1f01cf -r 903f7a4cfbf0 macros.xml
--- a/macros.xml Thu Mar 12 17:04:49 2020 -0400
+++ b/macros.xml Fri Mar 20 04:58:19 2020 -0400
b
@@ -1,6 +1,6 @@
 <macros>
     <token name="@WRAPPER_VERSION@">@TOOL_VERSION@+galaxy</token>
-    <token name="@TOOL_VERSION@">1.0.4</token>
+    <token name="@TOOL_VERSION@">1.1.2</token>
     <xml name="requirements">
         <requirements>
             <requirement type="package" version="@TOOL_VERSION@">chira</requirement>
b
diff -r f1ac3a1f01cf -r 903f7a4cfbf0 test-data/alignments.bed
--- a/test-data/alignments.bed Thu Mar 12 17:04:49 2020 -0400
+++ b/test-data/alignments.bed Fri Mar 20 04:58:19 2020 -0400
b
b'@@ -1,337 +1,337 @@\n-mmu-miR-124-3p\t0\t20\t3|2,mmu-miR-124-3p,0,20,+,5S20M30S\t0\t+\n-ENSMUST00000182884\t6023\t6051\t28|3,ENSMUST00000182884,6023,6051,+,27S28M\t0\t+\n-ENSMUST00000182010\t428\t477\t36|10,ENSMUST00000182010,428,477,+,5S49M1S\t0\t+\n-ENSMUST00000113560\t1969\t1992\t38|2,ENSMUST00000113560,1969,1992,+,32S23M\t0\t+\n-mmu-miR-9-5p\t0\t23\t11|1,mmu-miR-9-5p,0,23,+,5S23M27S\t0\t+\n-mmu-miR-9-5p\t0\t23\t38|2,mmu-miR-9-5p,0,23,+,5S23M27S\t0\t+\n-ENSMUST00000138581\t1621\t1644\t38|2,ENSMUST00000138581,1621,1644,+,32S23M\t0\t+\n-ENSMUST00000182010\t419\t468\t34|1,ENSMUST00000182010,419,468,+,5S49M1S\t0\t+\n-ENSMUST00000047061\t2204\t2232\t28|3,ENSMUST00000047061,2204,2232,+,27S28M\t0\t+\n-ENSMUST00000100207\t1580\t1603\t38|2,ENSMUST00000100207,1580,1603,+,32S23M\t0\t+\n-ENSMUST00000172109\t1499\t1514\t11|1,ENSMUST00000172109,1499,1514,+,35S15M5S\t0\t+\n-ENSMUST00000182795\t2429\t2457\t28|3,ENSMUST00000182795,2429,2457,+,27S28M\t0\t+\n-ENSMUST00000075326\t1661\t1684\t38|2,ENSMUST00000075326,1661,1684,+,32S23M\t0\t+\n-ENSMUST00000106215\t953\t1003\t21|3,ENSMUST00000106215,953,1003,+,5S50M\t0\t+\n-ENSMUST00000182439\t2218\t2246\t28|3,ENSMUST00000182439,2218,2246,+,27S28M\t0\t+\n-ENSMUST00000185502\t4240\t4290\t7|1,ENSMUST00000185502,4240,4290,+,5S50M\t0\t+\n-ENSMUST00000166060\t435\t467\t19|2,ENSMUST00000166060,435,467,+,26S12M3D17M\t0\t+\n-ENSMUST00000107857\t399\t431\t19|2,ENSMUST00000107857,399,431,+,26S12M3D17M\t0\t+\n-ENSMUST00000155835\t2617\t2667\t4|2,ENSMUST00000155835,2617,2667,+,5S50M\t0\t+\n-ENSMUST00000071555\t1077\t1127\t21|3,ENSMUST00000071555,1077,1127,+,5S50M\t0\t+\n-ENSMUST00000181221\t1499\t1514\t11|1,ENSMUST00000181221,1499,1514,+,35S15M5S\t0\t+\n-ENSMUST00000182010\t424\t474\t35|9,ENSMUST00000182010,424,474,+,5S50M\t0\t+\n-ENSMUST00000100208\t1748\t1771\t38|2,ENSMUST00000100208,1748,1771,+,32S23M\t0\t+\n-ENSMUST00000113562\t1759\t1782\t38|2,ENSMUST00000113562,1759,1782,+,32S23M\t0\t+\n-ENSMUST00000128302\t226\t257\t6|4,ENSMUST00000128302,226,257,+,24S31M\t0\t+\n-ENSMUST00000148758\t777\t805\t27|1,ENSMUST00000148758,777,805,+,27S28M\t0\t+\n-ENSMUST00000111596\t608\t626\t19|2,ENSMUST00000111596,608,626,+,30S18M7S\t0\t+\n-ENSMUST00000106992\t3071\t3121\t16|3,ENSMUST00000106992,3071,3121,+,5S50M\t0\t+\n-mmu-miR-9-5p\t0\t23\t32|1,mmu-miR-9-5p,0,23,+,5S23M27S\t0\t+\n-ENSMUST00000182972\t3233\t3261\t28|3,ENSMUST00000182972,3233,3261,+,27S28M\t0\t+\n-ENSMUST00000064989\t2466\t2516\t29|1,ENSMUST00000064989,2466,2516,+,5S50M\t0\t+\n-ENSMUST00000182029\t3343\t3371\t28|3,ENSMUST00000182029,3343,3371,+,27S28M\t0\t+\n-ENSMUST00000182010\t426\t476\t15|2,ENSMUST00000182010,426,476,+,5S50M\t0\t+\n-ENSMUST00000187980\t1254\t1305\t24|1,ENSMUST00000187980,1254,1305,+,4S51M\t0\t+\n-ENSMUST00000182692\t3374\t3402\t28|3,ENSMUST00000182692,3374,3402,+,27S28M\t0\t+\n-ENSMUST00000167541\t285\t336\t1|3,ENSMUST00000167541,285,336,+,4S51M\t0\t+\n-ENSMUST00000113564\t1723\t1746\t38|2,ENSMUST00000113564,1723,1746,+,32S23M\t0\t+\n-ENSMUST00000128500\t1065\t1088\t38|2,ENSMUST00000128500,1065,1088,+,32S23M\t0\t+\n-ENSMUST00000045218\t5944\t5972\t3|2,ENSMUST00000045218,5944,5972,+,27S28M\t0\t+\n-ENSMUST00000111134\t233\t264\t6|4,ENSMUST00000111134,233,264,+,24S31M\t0\t+\n-ENSMUST00000182010\t9\t59\t8|4,ENSMUST00000182010,9,59,+,5S50M\t0\t+\n-ENSMUST00000167930\t463\t495\t19|2,ENSMUST00000167930,463,495,+,26S12M3D17M\t0\t+\n-ENSMUST00000075012\t856\t906\t14|1,ENSMUST00000075012,856,906,+,5S50M\t0\t+\n-ENSMUST00000041591\t326\t377\t1|3,ENSMUST00000041591,326,377,+,4S51M\t0\t+\n-ENSMUST00000106746\t905\t955\t14|1,ENSMUST00000106746,905,955,+,5S50M\t0\t+\n-ENSMUST00000182437\t2388\t2416\t28|3,ENSMUST00000182437,2388,2416,+,27S28M\t0\t+\n-ENSMUST00000171545\t470\t521\t1|3,ENSMUST00000171545,470,521,+,4S51M\t0\t+\n-ENSMUST00000181455\t1765\t1780\t11|1,ENSMUST00000181455,1765,1780,+,35S15M5S\t0\t+\n-ENSMUST00000032571\t4128\t4178\t20|1,ENSMUST00000032571,4128,4178,+,5S15M1D34M\t0\t+\n-ENSMUST00000092432\t5519\t5547\t28|3,ENSMUST00000092432,5519,5547,+,27S28M\t0\t+\n-ENSMUST00000182010\t0\t47\t31|10,ENSMUST00000182010,0,47,+,8S47M\t0\t+\n-mmu-miR-124-3p\t0\t20\t19|2,mmu-miR-124-3p,0,20,+,6S20M29S\t0\t+\n-ENSMUST00000182010\t0\t44\t5|12,ENSMUST00000182010,0,44,+,9S44M2S\t0\t+\n-ENSMUST00000062147\t344\t394\t21|3,ENSMUST00000062147,344,394,+,5S50M\t0\t+\n-ENSMUST'..b'128275\t79\t93\t2|1,ENSMUST00000128275,79,93,+,40S14M\t1\t+\n+ENSMUST00000194127\t469\t483\t2|1,ENSMUST00000194127,469,483,+,40S14M\t1\t+\n+ENSMUST00000111813\t56\t73\t10|2,ENSMUST00000111813,56,73,+,38S17M\t1\t+\n+ENSMUST00000151752\t1887\t1902\t26|1,ENSMUST00000151752,1887,1902,+,39S15M1S\t1\t+\n+ENSMUST00000137408\t2183\t2198\t26|1,ENSMUST00000137408,2183,2198,+,39S15M1S\t1\t+\n+ENSMUST00000189036\t14\t25\t20|1,ENSMUST00000189036,14,25,+,41S11M2S\t1\t+\n+ENSMUST00000000254\t463\t474\t20|1,ENSMUST00000000254,463,474,+,41S11M2S\t1\t+\n+ENSMUST00000138762\t6784\t6795\t20|1,ENSMUST00000138762,6784,6795,+,43S11M\t1\t+\n+ENSMUST00000129785\t2240\t2251\t20|1,ENSMUS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b
diff -r f1ac3a1f01cf -r 903f7a4cfbf0 test-data/segments.bed
--- a/test-data/segments.bed Thu Mar 12 17:04:49 2020 -0400
+++ b/test-data/segments.bed Fri Mar 20 04:58:19 2020 -0400
b
@@ -1,13 +1,13 @@
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