| Previous changeset 141:9809bcb27cc1 (2015-01-07) Next changeset 143:1435811cbf01 (2015-02-26) |
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rgedgeRpaired_nocamera.xml test-data/edgeRtest1out.html test-data/edgeRtest1out.xls tool_dependencies.xml |
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| diff -r 9809bcb27cc1 -r e7894f37320a rgedgeRpaired_nocamera.xml --- a/rgedgeRpaired_nocamera.xml Wed Jan 07 05:45:33 2015 -0500 +++ b/rgedgeRpaired_nocamera.xml Wed Feb 18 11:37:14 2015 -0500 |
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| @@ -131,7 +131,7 @@ <param name='subjectids' value='' /> <param name='Control_cols' value='3,4,5,9' /> <param name='Treat_cols' value='2,6,7,8' /> - <output name='out_edgeR' file='edgeRtest1out.xls' compare='diff' /> + <output name='out_edgeR' file='edgeRtest1out.xls' compare='diff' lines_diff='20' /> <output name='html_file' file='edgeRtest1out.html' compare='diff' lines_diff='20' /> </test> </tests> @@ -1063,6 +1063,9 @@ .. _limma_VOOM: http://www.bioconductor.org/packages/release/bioc/html/limma.html .. _Galaxy: http://getgalaxy.org </help> +<citations> + <citation type="doi">doi: 10.1093/bioinformatics/btp616</citation> +</citations> </tool> |
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| diff -r 9809bcb27cc1 -r e7894f37320a test-data/edgeRtest1out.html --- a/test-data/edgeRtest1out.html Wed Jan 07 05:45:33 2015 -0500 +++ b/test-data/edgeRtest1out.html Wed Feb 18 11:37:14 2015 -0500 |
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| b'@@ -8,7 +8,7 @@\n <body> \n <div class="toolFormBody"> \n \n-<div class="infomessage">Galaxy Tool "Differential_Counts" run at 28/12/2014 21:02:37</div><br/>\n+<div class="infomessage">Galaxy Tool "Differential_Counts" run at 18/02/2015 14:14:12</div><br/>\n <div class="toolFormTitle">DESeq2 images and outputs</div>\n (Click on a thumbnail image to download the corresponding original PDF image)<br/>\n <div><table class="simple" cellpadding="2" cellspacing="2">\n@@ -40,105 +40,105 @@\n \n Contig baseMean log2FoldChange lfcSE stat pvalue padj NReads URL\n \n-Mir192 Mir192 271352.97636 6.965264 0.2150593 32.387646 4.096935e-230 3.818343e-227 2325567 <a href=\'http://www.genecards.org/index.php?path=/Search/keyword/Mir192\'>Mir192</a>\n+Mir122a Mir122a 10112.31117 10.433687 0.3440661 30.324653 5.425198e-202 4.568017e-199 90428 <a href=\'http://www.genecards.org/index.php?path=/Search/keyword/Mir122a\'>Mir122a</a>\n \n-Mir122a Mir122a 10112.31117 10.312083 0.3292695 31.318061 2.649329e-215 1.234587e-212 90428 <a href=\'http://www.genecards.org/index.php?path=/Search/keyword/Mir122a\'>Mir122a</a>\n+Mir192 Mir192 271352.97636 6.994296 0.2346736 29.804353 3.430828e-195 1.444379e-192 2325567 <a href=\'http://www.genecards.org/index.php?path=/Search/keyword/Mir192\'>Mir192</a>\n \n-Mir149 Mir149 810.35429 -6.911118 0.2341392 -29.517132 1.735536e-191 5.391733e-189 6164 <a href=\'http://www.genecards.org/index.php?path=/Search/keyword/Mir149\'>Mir149</a>\n+Mir149 Mir149 810.35429 -6.947219 0.2752144 -25.242938 1.353995e-140 3.800212e-138 6164 <a href=\'http://www.genecards.org/index.php?path=/Search/keyword/Mir149\'>Mir149</a>\n \n-Mir23a Mir23a 1289.18043 -3.104086 0.1191688 -26.047815 1.424245e-149 3.318491e-147 10118 <a href=\'http://www.genecards.org/index.php?path=/Search/keyword/Mir23a\'>Mir23a</a>\n+Mir23a Mir23a 1289.18043 -3.104596 0.1650418 -18.810968 6.140634e-79 1.292603e-76 10118 <a href=\'http://www.genecards.org/index.php?path=/Search/keyword/Mir23a\'>Mir23a</a>\n \n-Mir181d Mir181d 275.22797 -3.581172 0.1778187 -20.139461 3.329373e-90 6.205952e-88 2139 <a href=\'http://www.genecards.org/index.php?path=/Search/keyword/Mir181d\'>Mir181d</a>\n+Mir204 Mir204 347.57397 -7.385478 0.4210055 -17.542475 6.790394e-69 1.143502e-66 2601 <a href=\'http://www.genecards.org/index.php?path=/Search/keyword/Mir204\'>Mir204</a>\n \n-Mir204 Mir204 347.57397 -7.284200 0.3771119 -19.315751 3.959346e-83 6.150183e-81 2601 <a href=\'http://www.genecards.org/index.php?path=/Search/keyword/Mir204\'>Mir204</a>\n+Mir10b Mir10b 27820.40551 -5.122625 0.3095281 -16.549791 1.606588e-61 2.254579e-59 197340 <a href=\'http://www.genecards.org/index.php?path=/Search/keyword/Mir10b\'>Mir10b</a>\n \n-Mir23b Mir23b 2028.55377 -2.065110 0.1085802 -19.019217 1.182361e-80 1.574229e-78 16387 <a href=\'http://www.genecards.org/index.php?path=/Search/keyword/Mir23b\'>Mir23b</a>\n+Mir194-2 Mir194-2 391.65678 5.272315 0.3261217 16.166709 8.660202e-59 1.041699e-56 3570 <a href=\'http://www.genecards.org/index.php?path=/Search/keyword/Mir194-2\'>Mir194-2</a>\n \n-Mir27a Mir27a 2788.72629 -3.016676 0.1688167 -17.869539 2.036708e-71 2.372765e-69 21886 <a href=\'http://www.genecards.org/index.php?path=/Search/keyword/Mir27a\'>Mir27a</a>\n+Mir181d Mir181d 275.22797 -3.578479 0.2232474 -16.029209 7.98932'..b'e_1.40.1 AnnotationDbi_1.24.0 Biobase_2.22.0 bitops_1.0-6 caTools_1.17.1 DBI_0.3.0 gdata_2.13.3 genefilter_1.44.0 grid_3.0.2 gtools_3.4.1 KernSmooth_2.23-13 lattice_0.20-29 locfit_1.5-9.1 RSQLite_0.11.4 stats4_3.0.2 survival_2.37-7 XML_3.98-1.1 xtable_1.7-4 \n+ [1] annotate_1.42.1 AnnotationDbi_1.26.1 Biobase_2.24.0 bitops_1.0-6 caTools_1.17.1 DBI_0.3.1 gdata_2.13.3 genefilter_1.46.1 geneplotter_1.42.0 grid_3.1.0 gtools_3.4.1 KernSmooth_2.23-13 lattice_0.20-29 locfit_1.5-9.1 RSQLite_1.0.0 stats4_3.1.0 survival_2.37-7 XML_3.98-1.1 xtable_1.7-4 XVector_0.4.0 \n \n \n </pre>\n@@ -595,15 +587,15 @@\n <div><table class="colored" cellpadding="3" cellspacing="3"><tr><th>Output File Name (click to view)</th><th>Size</th></tr>\n \n <tr><td><a href="DESeq2.log">DESeq2.log</a></td><td>10.5 KB</td></tr>\n-<tr class="odd_row"><td><a href="DESeq2_edgeRtest_MA_plot.pdf">DESeq2_edgeRtest_MA_plot.pdf</a></td><td>15.0 KB</td></tr>\n+<tr class="odd_row"><td><a href="DESeq2_edgeRtest_MA_plot.pdf">DESeq2_edgeRtest_MA_plot.pdf</a></td><td>14.9 KB</td></tr>\n <tr><td><a href="DESeq2_edgeRtest_PCA_plot.pdf">DESeq2_edgeRtest_PCA_plot.pdf</a></td><td>4.9 KB</td></tr>\n-<tr class="odd_row"><td><a href="DESeq2_edgeRtest_dispersion_estimates.pdf">DESeq2_edgeRtest_dispersion_estimates.pdf</a></td><td>190.6 KB</td></tr>\n-<tr><td><a href="DESeq2_edgeRtest_qqplot.pdf">DESeq2_edgeRtest_qqplot.pdf</a></td><td>13.3 KB</td></tr>\n-<tr class="odd_row"><td><a href="DESeq2_edgeRtest_sample_distance_plot.pdf">DESeq2_edgeRtest_sample_distance_plot.pdf</a></td><td>9.5 KB</td></tr>\n+<tr class="odd_row"><td><a href="DESeq2_edgeRtest_dispersion_estimates.pdf">DESeq2_edgeRtest_dispersion_estimates.pdf</a></td><td>188.4 KB</td></tr>\n+<tr><td><a href="DESeq2_edgeRtest_qqplot.pdf">DESeq2_edgeRtest_qqplot.pdf</a></td><td>12.8 KB</td></tr>\n+<tr class="odd_row"><td><a href="DESeq2_edgeRtest_sample_distance_plot.pdf">DESeq2_edgeRtest_sample_distance_plot.pdf</a></td><td>9.4 KB</td></tr>\n <tr><td><a href="Differential.log">Differential.log</a></td><td>1.4 KB</td></tr>\n <tr class="odd_row"><td><a href="Differential_Counts.Rscript">Differential_Counts.Rscript</a></td><td>28.3 KB</td></tr>\n-<tr><td><a href="Differential_Counts_error.log">Differential_Counts_error.log</a></td><td>1.8 KB</td></tr>\n-<tr class="odd_row"><td><a href="Differential_Counts_runner.log">Differential_Counts_runner.log</a></td><td>1.3 KB</td></tr>\n+<tr><td><a href="Differential_Counts_error.log">Differential_Counts_error.log</a></td><td>1.6 KB</td></tr>\n+<tr class="odd_row"><td><a href="Differential_Counts_runner.log">Differential_Counts_runner.log</a></td><td>1.4 KB</td></tr>\n <tr><td><a href="Differential_rowsum_bar_charts.pdf">Differential_rowsum_bar_charts.pdf</a></td><td>6.3 KB</td></tr>\n <tr class="odd_row"><td><a href="Differential_venn_edgeRtest_significant_genes_overlap.pdf">Differential_venn_edgeRtest_significant_genes_overlap.pdf</a></td><td>9.7 KB</td></tr>\n <tr><td><a href="VOOM.log">VOOM.log</a></td><td>10.1 KB</td></tr>\n@@ -614,7 +606,7 @@\n <tr class="odd_row"><td><a href="edgeR_edgeRtest_GoodnessofFit.pdf">edgeR_edgeRtest_GoodnessofFit.pdf</a></td><td>13.1 KB</td></tr>\n <tr><td><a href="edgeR_edgeRtest_MDSplot.pdf">edgeR_edgeRtest_MDSplot.pdf</a></td><td>4.9 KB</td></tr>\n <tr class="odd_row"><td><a href="edgeR_edgeRtest_qqplot.pdf">edgeR_edgeRtest_qqplot.pdf</a></td><td>15.2 KB</td></tr>\n-<tr><td><a href="edgeR_edgeRtest_smearplot.pdf">edgeR_edgeRtest_smearplot.pdf</a></td><td>16.7 KB</td></tr>\n+<tr><td><a href="edgeR_edgeRtest_smearplot.pdf">edgeR_edgeRtest_smearplot.pdf</a></td><td>16.6 KB</td></tr>\n <tr class="odd_row"><td><a href="edgeR_edgeRtest_top_100_heatmap.pdf">edgeR_edgeRtest_top_100_heatmap.pdf</a></td><td>11.2 KB</td></tr>\n </table></div><br/>\n </div></body></html>\n' |
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| diff -r 9809bcb27cc1 -r e7894f37320a test-data/edgeRtest1out.xls --- a/test-data/edgeRtest1out.xls Wed Jan 07 05:45:33 2015 -0500 +++ b/test-data/edgeRtest1out.xls Wed Feb 18 11:37:14 2015 -0500 |
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| b'@@ -1,1142 +1,1142 @@\n Name\tlogFC\tlogCPM\tLR\tPValue\tadj.p.value\tDispersion\ttotreads\tliver_X11706Liv_CAAAAG_L003_R1_001_trimmed.fastq_bwa.sam.bam\tliver_X11700Liv_ATTCCT_L003_R1_001_trimmed.fastq_bwa.sam.bam\tliver_X11698Liv_ACTGAT_L003_R1_001_trimmed.fastq_bwa.sam.bam\tliver_X11699Liv_ATGAGC_L003_R1_001_trimmed.fastq_bwa.sam.bam\theart_X11706He_AGTTCC_L001_R1_001_trimmed.fastq_bwa.sam.bam\theart_X11699He_GGCTAC_L001_R1_001_trimmed.fastq_bwa.sam.bam\theart_X11698He_TAGCTT_L001_R1_001_trimmed.fastq_bwa.sam.bam\theart_X11700He_CTTGTA_L001_R1_001_trimmed.fastq_bwa.sam.bam\tliver_X11706Liv_CAAAAG_L003_R1_001_trimmed.fastq_bwa.sam.bam\tliver_X11700Liv_ATTCCT_L003_R1_001_trimmed.fastq_bwa.sam.bam\tliver_X11698Liv_ACTGAT_L003_R1_001_trimmed.fastq_bwa.sam.bam\tliver_X11699Liv_ATGAGC_L003_R1_001_trimmed.fastq_bwa.sam.bam\theart_X11706He_AGTTCC_L001_R1_001_trimmed.fastq_bwa.sam.bam\theart_X11699He_GGCTAC_L001_R1_001_trimmed.fastq_bwa.sam.bam\theart_X11698He_TAGCTT_L001_R1_001_trimmed.fastq_bwa.sam.bam\theart_X11700He_CTTGTA_L001_R1_001_trimmed.fastq_bwa.sam.bam\n-Mir208a\t-11.840750632598\t8.46501715136261\t594.169461743406\t3.10454347546078e-131\t3.54228410550075e-128\t0.0517121951967719\t4638\t0\t0\t0\t0.539638866040004\t789.596577514809\t739.374891373071\t627.962821069374\t673.126883915814\t0\t0\t0\t1\t1060\t956\t1693\t928\n-Mir149\t-7.00898388335376\t8.86176664758882\t484.303208152322\t2.47390942925463e-107\t1.41136532938977e-104\t0.0495993679583824\t6164\t9.41025046314352\t5.51321148265855\t4.26049561369029\t8.63422185664007\t1042.11850183323\t868.533475953932\t851.254975991856\t934.979044577031\t25\t9\t8\t16\t1399\t1123\t2295\t1289\n-Mir208b\t-13.291634767704\t9.90594480087289\t417.69757945293\t7.73746269808422e-93\t2.9428149795047e-90\t0.105080963355037\t14756\t0.376410018525741\t0\t0\t0\t1526.30508238476\t1273.79753775256\t3302.64675652788\t1563.13408926571\t1\t0\t0\t0\t2049\t1647\t8904\t2155\n-Mir122a\t10.5146833711912\t12.4780878408673\t415.174288147205\t2.74052534761176e-92\t7.81734855406255e-90\t0.108038824165009\t90428\t11204.5970214557\t14844.628206585\t6343.34540683313\t13201.1855799366\t8.93882917941294\t5.41383288662291\t10.0147644234336\t5.8028179647915\t29767\t24233\t11911\t24463\t12\t7\t27\t8\n-Mir204\t-7.49816212335945\t7.63450677628189\t341.306784530615\t3.31342972702995e-76\t7.56124663708234e-74\t0.0690795844187195\t2601\t1.8820500926287\t1.22515810725746\t0.532561951711286\t4.85674979436004\t425.339288453732\t424.599179250854\t342.356576401082\t392.415564869025\t5\t2\t1\t9\t571\t549\t923\t541\n-Mir499\t-13.5774541855867\t8.70007828481468\t325.791992848402\t7.93075479822316e-73\t1.50816520412877e-70\t0.120422839295321\t6527\t0\t0\t0\t0\t647.32021307582\t564.58542960496\t1538.19363199923\t566.50010381277\t0\t0\t0\t0\t869\t730\t4147\t781\n-Mir490\t-8.53439419162448\t6.99102321339932\t303.171839764489\t6.71036610165275e-68\t1.0937896745694e-65\t0.0794971090139375\t1741\t1.12923005557722\t0.612579053628728\t0\t0.539638866040004\t262.950558361064\t240.528861105675\t278.187900650933\t233.563423082858\t3\t1\t0\t1\t353\t311\t750\t322\n-Mir192\t6.95385326892851\t17.1693636192881\t217.228665712558\t3.63830691057425e-49\t5.18913523120652e-47\t0.127009948729763\t2325567\t249233.494796504\t300364.049628613\t335966.174675113\t284173.826856666\t2394.11641521943\t2446.27906005547\t2236.25980403264\t2358.84550268775\t662133\t490327\t630849\t526600\t3214\t3163\t6029\t3252\n-Mir802\t11.4408053854897\t6.59338011170441\t212.880585690967\t3.23164416041045e-48\t4.09700665225369e-46\t0.122736709286819\t1514\t207.778330226209\t245.64420050512\t111.305447907659\t189.952880846082\t0\t0\t0\t0\t552\t401\t209\t352\t0\t0\t0\t0\n-Mir1948\t7.41814210388816\t7.25273383973858\t195.669583337086\t1.84024810781419e-44\t2.09972309101599e-42\t0.120602206144644\t2404\t327.100306098869\t396.951226751416\t137.933545493223\t332.957180346683\t1.48980486323549\t1.54680939617797\t1.11275160260373\t2.90140898239575\t869\t648\t259\t617\t2\t2\t3\t4\n-Mir194-2\t5.29895000039034\t7.81152218291727\t191.855876444429\t1.25095991572432e-43\t1.29758660349223e-41\t0.0867075108859984\t3570\t495.355584379875\t529.88088138885\t233.794696801255\t474.882202115204\t14.1531462007372\t11.6010704713348\t7.41834401735823\t11.605635929583\t1316\t865\t'..b'05\t0.773498972596457\t0.00166750508360192\t0.967427359942802\t0.979600223943461\t0.367416862910443\t9\t0.376410018525741\t0\t1.06512390342257\t1.07927773208001\t0.744902431617745\t1.54680939617797\t0\t0.725352245598938\t1\t0\t2\t2\t1\t2\t0\t1\n+6330549D23Rik\t0.0365504895755011\t0.766481265149971\t0.001655051458886\t0.967549153599363\t0.979600223943461\t0.14479535661279\t9\t0.752820037051481\t1.22515810725746\t0\t0.539638866040004\t0.744902431617745\t0.773404698088987\t0.370917200867911\t0.725352245598938\t2\t2\t0\t1\t1\t1\t1\t1\n+Gm16291\t-0.0497984136905252\t1.04049827004916\t0.0016518446929279\t0.967580589293848\t0.979600223943461\t0.760533853439002\t14\t0.752820037051481\t0.612579053628728\t2.66280975855643\t0\t2.23470729485323\t1.54680939617797\t0\t0.725352245598938\t2\t1\t5\t0\t3\t2\t0\t1\n+Gm4890\t-0.0259416163379982\t0.436081268353407\t0.00151936527292662\t0.968907102497693\t0.98007358506194\t0.663367644323529\t4\t0\t0\t1.06512390342257\t0\t0\t0\t0.741834401735823\t0\t0\t0\t2\t0\t0\t0\t2\t0\n+5430402O13Rik\t-0.0215659699048923\t0.436296133284018\t0.00131072481225036\t0.97111974944258\t0.980573127534499\t0.663360848615298\t4\t0\t0\t0\t1.07927773208001\t0\t0\t0.741834401735823\t0\t0\t0\t0\t2\t0\t0\t2\t0\n+Gm6297\t-0.0215659699048923\t0.436296133284018\t0.00131072481225036\t0.97111974944258\t0.980573127534499\t0.663360848615298\t4\t0\t0\t0\t1.07927773208001\t0\t0\t0.741834401735823\t0\t0\t0\t0\t2\t0\t0\t2\t0\n+G730013B05Rik\t-0.0385365765720758\t1.01651726367811\t0.000926357528096666\t0.975719236926612\t0.983633409858321\t0.703663961483588\t14\t2.25846011115444\t0\t1.06512390342257\t0\t1.48980486323549\t1.54680939617797\t0.741834401735823\t0\t6\t0\t2\t0\t2\t2\t2\t0\n+Fut8\t-0.0301535765572007\t0.983272857012977\t0.000914530318683049\t0.975874688834022\t0.983633409858321\t0.461988777734701\t13\t0.376410018525741\t0.612579053628728\t2.66280975855643\t0\t0.744902431617745\t1.54680939617797\t0.741834401735823\t0.725352245598938\t1\t1\t5\t0\t1\t2\t2\t1\n+Mir451\t0.00783986907363816\t10.6424503554937\t0.000668429571945239\t0.979373786503057\t0.986289047131498\t0.0880041429724181\t23834\t1259.46792198713\t1282.12795924493\t1240.8693474873\t2624.26380555254\t1712.5306902892\t1143.86554847361\t1957.70098618084\t1556.60591905532\t3346\t2093\t2330\t4863\t2299\t1479\t5278\t2146\n+Mir3103\t-0.00110923167299781\t0.437273490728585\t0.000542752971082194\t0.98141331743335\t0.987471424331087\t0.663329937374331\t4\t0\t0.612579053628728\t0\t0.539638866040004\t0\t0\t0.741834401735823\t0\t0\t1\t0\t1\t0\t0\t2\t0\n+Mir877\t0.0169238059397644\t2.07117778204749\t0.000493226399528979\t0.982281476919532\t0.987474154330561\t0.411290532452574\t45\t2.25846011115444\t4.2880533754011\t0.532561951711286\t5.93602752644005\t2.23470729485323\t3.09361879235595\t1.85458600433956\t5.8028179647915\t6\t7\t1\t11\t3\t4\t5\t8\n+Mirlet7a-2\t0.00692268187138235\t3.52904314853656\t0.00022929237906455\t0.987918571855857\t0.99163860902885\t0.145210168896343\t158\t13.1743506484009\t10.4138439116884\t7.98842927566929\t9.71349958872008\t8.93882917941294\t9.28085637706784\t13.7239364321127\t8.70422694718725\t35\t17\t15\t18\t12\t12\t37\t12\n+Adarb1\t-0.0208372088988089\t1.01574105327976\t0.00022013643217722\t0.988162224772833\t0.99163860902885\t0.682420434692619\t14\t2.25846011115444\t0\t1.06512390342257\t0\t1.48980486323549\t0\t0.741834401735823\t1.45070449119788\t6\t0\t2\t0\t2\t0\t2\t2\n+Zfp821\t0.0194908209614398\t0.438251386312134\t0.000105717134499805\t0.991796388203091\t0.994410965676386\t0.663299009834258\t4\t0\t1.22515810725746\t0\t0\t0\t0\t0.741834401735823\t0\t0\t2\t0\t0\t0\t0\t2\t0\n+Snord7\t-0.00363412912959558\t0.808396104681926\t2.65748040924052e-05\t0.995886863013664\t0.997635566899553\t1.23423123101011\t10\t2.25846011115444\t0\t0\t0\t0.744902431617745\t0\t0.370917200867911\t1.45070449119788\t6\t0\t0\t0\t1\t0\t1\t2\n+D330022K07Rik\t8.83246306189435e-05\t2.3059219632559\t9.35431281767762e-07\t0.999228304552315\t0.999852121805908\t0.587915295555411\t56\t4.89333024083463\t0.612579053628728\t9.05355317909186\t1.07927773208001\t4.46941458970647\t7.73404698088987\t1.11275160260373\t2.90140898239575\t13\t1\t17\t2\t6\t10\t3\t4\n+AA465934\t-0.00551213095838972\t1.05434721413031\t3.43501120880774e-08\t0.999852121805908\t0.999852121805908\t1.5006402731101\t15\t3.38769016673167\t0\t0\t0\t0.744902431617745\t0\t0.741834401735823\t2.17605673679681\t9\t0\t0\t0\t1\t0\t2\t3\n' |
| b |
| diff -r 9809bcb27cc1 -r e7894f37320a tool_dependencies.xml --- a/tool_dependencies.xml Wed Jan 07 05:45:33 2015 -0500 +++ b/tool_dependencies.xml Wed Feb 18 11:37:14 2015 -0500 |
| b |
| @@ -1,7 +1,7 @@ <?xml version="1.0"?> <tool_dependency> <package name="R" version="3.1.2"> - <repository changeset_revision="f0626dac6765" name="package_r_3_1_2" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> + <repository changeset_revision="c2e21092e4bf" name="package_r_3_1_2" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> </package> <package name="graphicsmagick" version="1.3.18"> <repository changeset_revision="bff3f66adff2" name="package_graphicsmagick_1_3" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> @@ -14,7 +14,7 @@ <install version="1.0"> <actions> <action type="setup_r_environment"> - <repository changeset_revision="f0626dac6765" name="package_r_3_1_2" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> + <repository changeset_revision="c2e21092e4bf" name="package_r_3_1_2" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> <package name="R" version="3.1.2" /> </repository> <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/diffcount/RColorBrewer_1.1-2.tar.gz?raw=true</package> |