{"diffoscope-json-version": 1, "source1": "/srv/reproducible-results/rbuild-debian/r-b-build.0EtW4mBx/b1/multcomp_1.4-23-1_i386.changes", "source2": "/srv/reproducible-results/rbuild-debian/r-b-build.0EtW4mBx/b2/multcomp_1.4-23-1_i386.changes", "unified_diff": null, "details": [{"source1": "Files", "source2": "Files", "unified_diff": "@@ -1,2 +1,2 @@\n \n- 5dda0c20f661182f70ffb411e85a5081 709136 gnu-r optional r-cran-multcomp_1.4-23-1_all.deb\n+ 5931950fa70298b8353c0bb787232312 709236 gnu-r optional r-cran-multcomp_1.4-23-1_all.deb\n"}, {"source1": "r-cran-multcomp_1.4-23-1_all.deb", "source2": "r-cran-multcomp_1.4-23-1_all.deb", "unified_diff": null, "details": [{"source1": "file list", "source2": "file list", "unified_diff": "@@ -1,3 +1,3 @@\n -rw-r--r--   0        0        0        4 2023-03-18 13:25:08.000000 debian-binary\n -rw-r--r--   0        0        0     2136 2023-03-18 13:25:08.000000 control.tar.xz\n--rw-r--r--   0        0        0   706808 2023-03-18 13:25:08.000000 data.tar.xz\n+-rw-r--r--   0        0        0   706908 2023-03-18 13:25:08.000000 data.tar.xz\n"}, {"source1": "control.tar.xz", "source2": "control.tar.xz", "unified_diff": null, "details": [{"source1": "control.tar", "source2": "control.tar", "unified_diff": null, "details": [{"source1": "./md5sums", "source2": "./md5sums", "unified_diff": null, "details": [{"source1": "./md5sums", "source2": "./md5sums", "comments": ["Files differ"], "unified_diff": null}]}]}]}, {"source1": "data.tar.xz", "source2": "data.tar.xz", "unified_diff": null, "details": [{"source1": "data.tar", "source2": "data.tar", "unified_diff": null, "details": [{"source1": "file list", "source2": "file list", "unified_diff": "@@ -23,15 +23,15 @@\n -rw-r--r--   0 root         (0) root         (0)      839 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/Meta/nsInfo.rds\n -rw-r--r--   0 root         (0) root         (0)     1585 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/Meta/package.rds\n -rw-r--r--   0 root         (0) root         (0)      399 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/Meta/vignette.rds\n -rw-r--r--   0 root         (0) root         (0)     1935 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/NAMESPACE\n -rw-r--r--   0 root         (0) root         (0)    13022 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/NEWS\n drwxr-xr-x   0 root         (0) root         (0)        0 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/R/\n -rw-r--r--   0 root         (0) root         (0)     1058 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/R/multcomp\n--rw-r--r--   0 root         (0) root         (0)   148215 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/R/multcomp.rdb\n+-rw-r--r--   0 root         (0) root         (0)   148216 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/R/multcomp.rdb\n -rw-r--r--   0 root         (0) root         (0)     1510 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/R/multcomp.rdx\n drwxr-xr-x   0 root         (0) root         (0)        0 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/data/\n -rw-r--r--   0 root         (0) root         (0)    19610 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/data/Rdata.rdb\n -rw-r--r--   0 root         (0) root         (0)      200 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/data/Rdata.rds\n -rw-r--r--   0 root         (0) root         (0)      310 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/data/Rdata.rdx\n drwxr-xr-x   0 root         (0) root         (0)        0 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/demo/\n -rw-r--r--   0 root         (0) root         (0)    27953 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/demo/Ch_Appl.R\n@@ -54,16 +54,16 @@\n -rw-r--r--   0 root         (0) root         (0)     2631 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/doc/index.html\n -rw-r--r--   0 root         (0) root         (0)     8058 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/doc/multcomp-examples.R\n -rw-r--r--   0 root         (0) root         (0)    13393 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/doc/multcomp-examples.Rnw\n -rw-r--r--   0 root         (0) root         (0)    86367 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/doc/multcomp-examples.pdf\n drwxr-xr-x   0 root         (0) root         (0)        0 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/help/\n -rw-r--r--   0 root         (0) root         (0)      674 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/help/AnIndex\n -rw-r--r--   0 root         (0) root         (0)      399 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/help/aliases.rds\n--rw-r--r--   0 root         (0) root         (0)    77659 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/help/multcomp.rdb\n--rw-r--r--   0 root         (0) root         (0)      586 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/help/multcomp.rdx\n+-rw-r--r--   0 root         (0) root         (0)    77740 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/help/multcomp.rdb\n+-rw-r--r--   0 root         (0) root         (0)      585 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/help/multcomp.rdx\n -rw-r--r--   0 root         (0) root         (0)      287 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/help/paths.rds\n drwxr-xr-x   0 root         (0) root         (0)        0 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/html/\n -rw-r--r--   0 root         (0) root         (0)     6039 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/html/00Index.html\n -rw-r--r--   0 root         (0) root         (0)     1735 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/html/R.css\n -rw-r--r--   0 root         (0) root         (0)    12608 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/multcomp_VA.R\n -rw-r--r--   0 root         (0) root         (0)    16610 2023-03-18 13:25:08.000000 ./usr/lib/R/site-library/multcomp/multcomp_coxme.R\n drwxr-xr-x   0 root         (0) root         (0)        0 2023-03-18 13:25:08.000000 ./usr/share/\n"}, {"source1": "./usr/lib/R/site-library/multcomp/R/multcomp.rdb", "source2": "./usr/lib/R/site-library/multcomp/R/multcomp.rdb", "unified_diff": null, "details": [{"source1": "Rscript --vanilla - {}", "source2": "Rscript --vanilla - {}", "unified_diff": "@@ -44,15 +44,15 @@\n     \"imports\" = \"fitted = \"fitted\", formula = \"formula\", get_all_vars = \"get_all_vars\", \"\n     \"imports\" = \"model.frame = \"model.frame\", model.matrix = \"model.matrix\", model.weights = \"model.weights\", \"\n     \"imports\" = \"p.adjust = \"p.adjust\", p.adjust.methods = \"p.adjust.methods\", \"\n     \"imports\" = \"pchisq = \"pchisq\", pf = \"pf\", pnorm = \"pnorm\", predict = \"predict\", \"\n     \"imports\" = \"printCoefmat = \"printCoefmat\", pt = \"pt\", terms = \"terms\", vcov = \"vcov\", \"\n     \"imports\" = \"xtabs = \"xtabs\", na.exclude = \"na.exclude\"))\"\n     \"lazydata\" = \"<environment>\"\n-    \"path\" = \"\"/build/1st/multcomp-1.4-23/debian/r-cran-multcomp/usr/lib/R/site-library/multcomp\"\"\n+    \"path\" = \"\"/build/2/multcomp-1.4-23/2nd/debian/r-cran-multcomp/usr/lib/R/site-library/multcomp\"\"\n     \"spec\" = \"c(name = \"multcomp\", version = \"1.4-23\")\"\n }\n \n .__S3MethodsTable__. (environment) = \n {\n }\n \n"}]}, {"source1": "./usr/lib/R/site-library/multcomp/R/multcomp.rdx", "source2": "./usr/lib/R/site-library/multcomp/R/multcomp.rdx", "unified_diff": null, "details": [{"source1": "multcomp.rdx-content", "source2": "multcomp.rdx-content", "unified_diff": null, "details": [{"source1": "Rscript --vanilla -e 'args <- commandArgs(TRUE); readRDS(args[1])' {}", "source2": "Rscript --vanilla -e 'args <- commandArgs(TRUE); readRDS(args[1])' {}", "unified_diff": "@@ -1,322 +1,322 @@\n $variables\n $variables$.__NAMESPACE__.\n-[1] 1558   62\n+[1] 1559   62\n \n $variables$.__S3MethodsTable__.\n-[1] 1760   62\n+[1] 1761   62\n \n $variables$.bdiag\n-[1] 1822 2651\n+[1] 1823 2651\n \n $variables$.packageName\n-[1] 4473   62\n+[1] 4474   62\n \n $variables$Chisqtest\n-[1] 4535  184\n+[1] 4536  184\n \n $variables$Estfun\n-[1] 4719  418\n+[1] 4720  418\n \n $variables$Ftest\n-[1] 5137  181\n+[1] 5138  181\n \n $variables$MPinv\n-[1] 5318 1859\n+[1] 5319 1859\n \n $variables$adjusted\n-[1] 7177 4829\n+[1] 7178 4829\n \n $variables$adjusted_calpha\n-[1] 12006   579\n+[1] 12007   579\n \n $variables$allsubsets\n-[1] 12585  1011\n+[1] 12586  1011\n \n $variables$as.char\n-[1] 13596   782\n+[1] 13597   782\n \n $variables$bread.mmm\n-[1] 14378   283\n+[1] 14379   283\n \n $variables$cftest\n-[1] 14661  1366\n+[1] 14662  1366\n \n $variables$checkCS\n-[1] 16027   899\n+[1] 16028   899\n \n $variables$chkdots\n-[1] 16926   563\n+[1] 16927   563\n \n $variables$chrlinfct2matrix\n-[1] 17489  2805\n+[1] 17490  2805\n \n $variables$cld\n-[1] 20294   190\n+[1] 20295   190\n \n $variables$cld.confint.glht\n-[1] 20484  1795\n+[1] 20485  1795\n \n $variables$cld.glht\n-[1] 22279   344\n+[1] 22280   344\n \n $variables$cld.summary.glht\n-[1] 22623  1694\n+[1] 22624  1694\n \n $variables$coef.glht\n-[1] 24317   624\n+[1] 24318   624\n \n $variables$coef.mmm\n-[1] 24941   948\n+[1] 24942   948\n \n $variables$coef.parm\n-[1] 25889   203\n+[1] 25890   203\n \n $variables$confint.glht\n-[1] 26092  2299\n+[1] 26093  2299\n \n $variables$contrMat\n-[1] 28391  7425\n+[1] 28392  7425\n \n $variables$coxph.penalcoef\n-[1] 35816   538\n+[1] 35817   538\n \n $variables$coxph.penalvcov\n-[1] 36354   577\n+[1] 36355   577\n \n $variables$estfun.mmm\n-[1] 36931   306\n+[1] 36932   306\n \n $variables$expression2coef\n-[1] 37237 17804\n+[1] 37238 17804\n \n $variables$extr\n-[1] 55041  2306\n+[1] 55042  2306\n \n $variables$factor_contrasts\n-[1] 57347  1076\n+[1] 57348  1076\n \n $variables$gamlss.coef\n-[1] 58423   434\n+[1] 58424   434\n \n $variables$gamlss.vcov\n-[1] 58857   777\n+[1] 58858   777\n \n $variables$get_letters\n-[1] 59634  1012\n+[1] 59635  1012\n \n $variables$glht\n-[1] 60646   698\n+[1] 60647   698\n \n $variables$glht.character\n-[1] 61344   604\n+[1] 61345   604\n \n $variables$glht.expression\n-[1] 61948   297\n+[1] 61949   297\n \n $variables$glht.matrix\n-[1] 62245  2423\n+[1] 62246  2423\n \n $variables$glht.mcp\n-[1] 64668  1359\n+[1] 64669  1359\n \n $variables$glht.means\n-[1] 66027   742\n+[1] 66028   742\n \n $variables$glht.mlf\n-[1] 66769  1840\n+[1] 66770  1840\n \n $variables$global\n-[1] 68609  2337\n+[1] 68610  2337\n \n $variables$insert_absorb\n-[1] 70946  6164\n+[1] 70947  6164\n \n $variables$is_num\n-[1] 77110   534\n+[1] 77111   534\n \n $variables$lhs\n-[1] 77644   684\n+[1] 77645   684\n \n $variables$maxsets\n-[1] 78328  1275\n+[1] 78329  1275\n \n $variables$mcp\n-[1] 79603  1784\n+[1] 79604  1784\n \n $variables$mcp2matrix\n-[1] 81387  6558\n+[1] 81388  6558\n \n $variables$mcp2matrix2\n-[1] 87945  9143\n+[1] 87946  9143\n \n $variables$meanslinfct\n-[1] 97088  1992\n+[1] 97089  1992\n \n $variables$mlf\n-[1] 99080   343\n+[1] 99081   343\n \n $variables$mmm\n-[1] 99423   616\n+[1] 99424   616\n \n $variables$model.frame.coxme\n-[1] 100039    384\n+[1] 100040    384\n \n $variables$model.frame.coxph.penal\n-[1] 100423    890\n+[1] 100424    890\n \n $variables$model.frame.gls\n-[1] 101313    378\n+[1] 101314    378\n \n $variables$model.frame.lme\n-[1] 101691    398\n+[1] 101692    398\n \n $variables$model.matrix.aovlist\n-[1] 102089    322\n+[1] 102090    322\n \n $variables$model.matrix.coxme\n-[1] 102411    351\n+[1] 102412    351\n \n $variables$model.matrix.coxph.penal\n-[1] 102762    879\n+[1] 102763    879\n \n $variables$model.matrix.gamlss\n-[1] 103641    989\n+[1] 103642    989\n \n $variables$model.matrix.gls\n-[1] 104630    386\n+[1] 104631    386\n \n $variables$model.matrix.lme\n-[1] 105016    324\n+[1] 105017    324\n \n $variables$model.matrix.polr\n-[1] 105340   1127\n+[1] 105341   1127\n \n $variables$modelparm\n-[1] 106467    208\n+[1] 106468    208\n \n $variables$modelparm.aovlist\n-[1] 106675    347\n+[1] 106676    347\n \n $variables$modelparm.coxme\n-[1] 107022    324\n+[1] 107023    324\n \n $variables$modelparm.coxph.penal\n-[1] 107346    334\n+[1] 107347    334\n \n $variables$modelparm.default\n-[1] 107680   2851\n+[1] 107681   2851\n \n $variables$modelparm.fixest\n-[1] 110531    647\n+[1] 110532    647\n \n $variables$modelparm.glmmTMB\n-[1] 111178    404\n+[1] 111179    404\n \n $variables$modelparm.lme\n-[1] 111582    341\n+[1] 111583    341\n \n $variables$modelparm.mer\n-[1] 111923    341\n+[1] 111924    341\n \n $variables$modelparm.merMod\n-[1] 112264    341\n+[1] 112265    341\n \n $variables$modelparm.polr\n-[1] 112605    328\n+[1] 112606    328\n \n $variables$modelparm.survreg\n-[1] 112933    331\n+[1] 112934    331\n \n $variables$parm\n-[1] 113264   1763\n+[1] 113265   1763\n \n $variables$plot.cld\n-[1] 115027   3523\n+[1] 115028   3523\n \n $variables$plot.confint.glht\n-[1] 118550   3319\n+[1] 118551   3319\n \n $variables$plot.glht\n-[1] 121869    264\n+[1] 121870    264\n \n $variables$polrvcov\n-[1] 122133    397\n+[1] 122134    397\n \n $variables$pqglht\n-[1] 122530   4415\n+[1] 122531   4415\n \n $variables$print.cld\n-[1] 126945    286\n+[1] 126946    286\n \n $variables$print.confint.glht\n-[1] 127231   2571\n+[1] 127232   2571\n \n $variables$print.contrMat\n-[1] 129802    710\n+[1] 129803    710\n \n $variables$print.glht\n-[1] 130512   1305\n+[1] 130513   1305\n \n $variables$print.summary.glht\n-[1] 131817   3184\n+[1] 131818   3184\n \n $variables$print.summary.gtest\n-[1] 135001   1230\n+[1] 135002   1230\n \n $variables$rhs\n-[1] 136231    930\n+[1] 136232    930\n \n $variables$rmsets\n-[1] 137161    995\n+[1] 137162    995\n \n $variables$side\n-[1] 138156    804\n+[1] 138157    804\n \n $variables$summary.glht\n-[1] 138960    700\n+[1] 138961    700\n \n $variables$sweepLetters\n-[1] 139660   4079\n+[1] 139661   4079\n \n $variables$terms.coxph.penal\n-[1] 143739    908\n+[1] 143740    908\n \n $variables$terms.gls\n-[1] 144647    269\n+[1] 144648    269\n \n $variables$univariate\n-[1] 144916    653\n+[1] 144917    653\n \n $variables$univariate_calpha\n-[1] 145569    586\n+[1] 145570    586\n \n $variables$vcov.glht\n-[1] 146155    403\n+[1] 146156    403\n \n $variables$vcov.mmm\n-[1] 146558    993\n+[1] 146559    993\n \n $variables$vcov.parm\n-[1] 147551    202\n+[1] 147552    202\n \n $variables$vcovsurvreg\n-[1] 147753    462\n+[1] 147754    462\n \n \n $references\n $references$`env::1`\n-[1]  310 1248\n+[1]  310 1249\n \n $references$`env::2`\n [1]   0 140\n \n $references$`env::3`\n [1] 140 170\n \n $references$`env::4`\n-[1] 1620  140\n+[1] 1621  140\n \n \n $compressed\n [1] TRUE\n \n"}]}]}, {"source1": "./usr/lib/R/site-library/multcomp/help/multcomp.rdb", "source2": "./usr/lib/R/site-library/multcomp/help/multcomp.rdb", "unified_diff": null, "details": [{"source1": "Rscript --vanilla - {}", "source2": "Rscript --vanilla - {}", "unified_diff": "@@ -186,15 +186,15 @@\n         structure(\",..., \", Rd_tag = \"TEXT\"), structure(list(\n             structure(\"E28\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\code\"), \n         structure(\") for\\n\", Rd_tag = \"TEXT\"), structure(\"two arms (\", Rd_tag = \"TEXT\"), \n         structure(list(structure(\"group\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\code\"), \n         structure(\").\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\details\"), \n     structure(list(structure(\"\\n\", Rd_tag = \"TEXT\"), structure(\"  P. H. Westfall, R. D. Tobias, D. Rom, R. D. Wolfinger, Y. Hochberg (1999).\\n\", Rd_tag = \"TEXT\"), \n         structure(\"  \", Rd_tag = \"TEXT\"), structure(list(structure(\"Multiple Comparisons and Multiple Tests Using the SAS System\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\emph\"), \n-        structure(\".\\n\", Rd_tag = \"TEXT\"), structure(\"  Cary, NC: SAS Institute Inc.\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\source\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/adevent.Rd\", class = \"Rd\", meta = list(\n+        structure(\".\\n\", Rd_tag = \"TEXT\"), structure(\"  Cary, NC: SAS Institute Inc.\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\source\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/adevent.Rd\", class = \"Rd\", meta = list(\n     docType = \"data\"), prepared = 3L)\n \n cftest (list) = structure(list(structure(list(structure(\" Testing Estimated Coefficients \", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\title\"), \n     structure(list(structure(\"cftest\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\name\"), \n     structure(list(structure(\"cftest\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"htest\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\keyword\"), \n     structure(list(structure(\"\\n\", Rd_tag = \"TEXT\"), structure(\"  A convenience function for univariate testing via z- and t-tests of \\n\", Rd_tag = \"TEXT\"), \n@@ -225,15 +225,15 @@\n         structure(\".\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\value\"), \n     structure(list(structure(\"\\n\", Rd_tag = \"TEXT\"), structure(\"  \", Rd_tag = \"TEXT\"), \n         structure(list(structure(list(structure(\"coeftest\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\link\", Rd_option = structure(\"lmtest\", Rd_tag = \"TEXT\"))), Rd_tag = \"\\\\code\"), \n         structure(\"\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\seealso\"), \n     structure(list(structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  lmod <- lm(dist ~ speed, data = cars)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  summary(lmod)\\n\", Rd_tag = \"RCODE\"), structure(\"  cftest(lmod)\\n\", Rd_tag = \"RCODE\"), \n-        structure(\"  \\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/cftest.Rd\", class = \"Rd\", meta = list(\n+        structure(\"  \\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/cftest.Rd\", class = \"Rd\", meta = list(\n     docType = character(0)), prepared = 3L)\n \n cholesterol (list) = structure(list(structure(list(structure(\" Cholesterol Reduction Data Set \", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\title\"), \n     structure(list(structure(\"cholesterol\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\name\"), \n     structure(list(structure(\"cholesterol\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"datasets\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\keyword\"), \n     structure(list(structure(\"\\n\", Rd_tag = \"TEXT\"), structure(\" Cholesterol reduction for five treatments.\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\description\"), \n@@ -294,15 +294,15 @@\n         structure(\"  Ksub <- rbind(K[c(1,2,5),],\\n\", Rd_tag = \"RCODE\"), \n         structure(\"                \\\"D - test\\\" = c(-1, -1, -1, 3, 0),\\n\", Rd_tag = \"RCODE\"), \n         structure(\"                \\\"E - test\\\" = c(-1, -1, -1, 0, 3))\\n\", Rd_tag = \"RCODE\"), \n         structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"  ### reproduce results in Westfall et al. (1999, page 172)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  ### note: the ordering of our estimates here is different\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  amod <- aov(response ~ trt - 1, data = cholesterol)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  summary(glht(amod, linfct = mcp(trt = Ksub[,5:1])), \\n\", Rd_tag = \"RCODE\"), \n-        structure(\"          test = adjusted(\\\"Westfall\\\"))\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/cholesterol.Rd\", class = \"Rd\", meta = list(\n+        structure(\"          test = adjusted(\\\"Westfall\\\"))\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/cholesterol.Rd\", class = \"Rd\", meta = list(\n     docType = \"data\"), prepared = 3L)\n \n cld (list) = structure(list(structure(list(structure(\"Set up a compact letter display of all pair-wise comparisons\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\title\"), \n     structure(list(structure(\"cld\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\name\"), \n     structure(list(structure(\"cld\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"cld.glht\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"cld.summary.glht\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n@@ -435,15 +435,15 @@\n         structure(\"  ### specify all pair-wise comparisons among levels of variable \\\"Class\\\"\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  glht.mod <- glht(mod, mcp(Class = \\\"Tukey\\\"))\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  ### extract information\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  mod.cld <- cld(glht.mod)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  ### use sufficiently large upper margin\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  old.par <- par(mai=c(1,1,1.5,1), no.readonly = TRUE)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  ### plot\\n\", Rd_tag = \"RCODE\"), structure(\"  plot(mod.cld)\\n\", Rd_tag = \"RCODE\"), \n-        structure(\"  par(old.par)\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/cld.Rd\", class = \"Rd\", meta = list(\n+        structure(\"  par(old.par)\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/cld.Rd\", class = \"Rd\", meta = list(\n     docType = character(0)), prepared = 3L)\n \n cml (list) = structure(list(structure(list(structure(\"Chronic Myelogenous Leukemia survival data.\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\title\"), \n     structure(list(structure(\"cml\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\name\"), \n     structure(list(structure(\"cml\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"datasets\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\keyword\"), \n     structure(list(structure(\"\\n\", Rd_tag = \"TEXT\"), structure(\"  Survival in a randomised trial comparing three treatments for \\n\", Rd_tag = \"TEXT\"), \n@@ -499,15 +499,15 @@\n         structure(\"    ### covariates and center-specific random effect.\\n\", Rd_tag = \"RCODE\"), \n         structure(\"    cml_coxme <- coxme(Surv(time, status) ~ treatment + sex + age + riskgroup + (1|center), \\n\", Rd_tag = \"RCODE\"), \n         structure(\"                       data = cml)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"    glht_coxme <- glht(model = cml_coxme, linfct = mcp(treatment = \\\"Dunnett\\\"), \\n\", Rd_tag = \"RCODE\"), \n         structure(\"                       alternative = \\\"greater\\\")\\n\", Rd_tag = \"RCODE\"), \n         structure(\"    ci_coxme <- confint(glht_coxme)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"    exp(ci_coxme$confint)[1:2,]\\n\", Rd_tag = \"RCODE\"), \n-        structure(\"}\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/cml.Rd\", class = \"Rd\", meta = list(\n+        structure(\"}\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/cml.Rd\", class = \"Rd\", meta = list(\n     docType = \"data\"), prepared = 3L)\n \n contrMat (list) = structure(list(structure(list(structure(\" Contrast Matrices \", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\title\"), \n     structure(list(structure(\"contrMat\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\name\"), \n     structure(list(structure(\"contrMat\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"misc\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\keyword\"), \n     structure(list(structure(\"Dunnett\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\keyword\"), \n@@ -553,15 +553,15 @@\n         structure(\" contrMat(n, type = \\\"McDermott\\\")\\n\", Rd_tag = \"RCODE\"), \n         structure(\" ### Umbrella-protected Williams contrasts, i.e. a sequence of \\n\", Rd_tag = \"RCODE\"), \n         structure(\" ### Williams-type contrasts with groups of higher order \\n\", Rd_tag = \"RCODE\"), \n         structure(\" ### stepwise omitted\\n\", Rd_tag = \"RCODE\"), \n         structure(\" contrMat(n, type = \\\"UmbrellaWilliams\\\")\\n\", Rd_tag = \"RCODE\"), \n         structure(\" ### comparison of each group with grand mean of all groups\\n\", Rd_tag = \"RCODE\"), \n         structure(\" contrMat(n, type = \\\"GrandMean\\\")\\n\", Rd_tag = \"RCODE\"), \n-        structure(\"\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/contrMat.Rd\", class = \"Rd\", meta = list(\n+        structure(\"\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/contrMat.Rd\", class = \"Rd\", meta = list(\n     docType = character(0)), prepared = 3L)\n \n detergent (list) = structure(list(structure(list(structure(\" Detergent Durability Data Set \", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\title\"), \n     structure(list(structure(\"detergent\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\name\"), \n     structure(list(structure(\"detergent\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"datasets\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\keyword\"), \n     structure(list(structure(\"\\n\", Rd_tag = \"TEXT\"), structure(\"  Detergent durability in an incomplete two-way design.\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\description\"), \n@@ -616,15 +616,15 @@\n         structure(\"  confint(dht)\\n\", Rd_tag = \"RCODE\"), structure(\"\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  ### see Westfall et al. (1999, p. 192)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  summary(dht, test = univariate())\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  \", Rd_tag = \"RCODE\"), structure(list(structure(\"\\n\", Rd_tag = \"VERB\"), \n             structure(\"  summary(dht, test = adjusted(\\\"Shaffer\\\"))\\n\", Rd_tag = \"VERB\"), \n             structure(\"  summary(dht, test = adjusted(\\\"Westfall\\\"))\\n\", Rd_tag = \"VERB\"), \n             structure(\"  \", Rd_tag = \"VERB\")), Rd_tag = \"\\\\dontrun\"), \n-        structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/detergent.Rd\", class = \"Rd\", meta = list(\n+        structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/detergent.Rd\", class = \"Rd\", meta = list(\n     docType = \"data\"), prepared = 3L)\n \n fattyacid (list) = structure(list(structure(list(structure(\"Fatty Acid Content of Bacillus simplex.\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\title\"), \n     structure(list(structure(\"fattyacid\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\name\"), \n     structure(list(structure(\"fattyacid\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"datasets\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\keyword\"), \n     structure(list(structure(\"\\n\", Rd_tag = \"TEXT\"), structure(\"  Fatty acid content of different putative ecotypes of Bacillus simplex. \\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\description\"), \n@@ -668,15 +668,15 @@\n         structure(\"    ### covariance estimation\\n\", Rd_tag = \"RCODE\"), \n         structure(\"    amod <- aov(FA ~ PE, data = fattyacid)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"    amod_glht <- glht(amod, mcp(PE = \\\"Tukey\\\"), vcov = vcovHC)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"    summary(amod_glht)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"    ### simultaneous confidence intervals for the differences of \\n\", Rd_tag = \"RCODE\"), \n         structure(\"    ### means of fatty acid content between the putative ecotypes\\n\", Rd_tag = \"RCODE\"), \n         structure(\"    confint(amod_glht)\\n\", Rd_tag = \"RCODE\"), \n-        structure(\"}\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/fattyacid.Rd\", class = \"Rd\", meta = list(\n+        structure(\"}\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/fattyacid.Rd\", class = \"Rd\", meta = list(\n     docType = \"data\"), prepared = 3L)\n \n glht (list) = structure(list(structure(list(structure(\" General Linear Hypotheses \", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\title\"), \n     structure(list(structure(\"glht\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\name\"), \n     structure(list(structure(\"glht\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"glht.matrix\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"glht.character\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n@@ -1064,15 +1064,15 @@\n         structure(\"  summary(warpbreaks.mc)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"  ### more complex models: Continuous outcome logistic\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  ### regression; parameters are log-odds ratios\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  if (require(\\\"tram\\\")) {\\n\", Rd_tag = \"RCODE\"), \n         structure(\"      confint(glht(Colr(breaks ~ wool + tension, \\n\", Rd_tag = \"RCODE\"), \n         structure(\"                        data = warpbreaks), \\n\", Rd_tag = \"RCODE\"), \n         structure(\"                   linfct = mcp(\\\"tension\\\" = \\\"Tukey\\\")))\\n\", Rd_tag = \"RCODE\"), \n-        structure(\"  }\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/glht.Rd\", class = \"Rd\", meta = list(\n+        structure(\"  }\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/glht.Rd\", class = \"Rd\", meta = list(\n     docType = character(0)), prepared = 3L)\n \n hideOutput (NULL) = NULL\n \n litter (list) = structure(list(structure(list(structure(\" Litter Weights Data Set \", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\title\"), \n     structure(list(structure(\"litter\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\name\"), \n     structure(list(structure(\"litter\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n@@ -1132,15 +1132,15 @@\n         structure(\"  Kht <- glht(amod, linfct = mcp(dose = K), alternative = \\\"less\\\")\\n\", Rd_tag = \"RCODE\"), \n         structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"  ### cf. Westfall (1997, Table 2)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  summary(Kht, test = univariate())\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  summary(Kht, test = adjusted(\\\"bonferroni\\\"))\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  summary(Kht, test = adjusted(\\\"Shaffer\\\"))\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  summary(Kht, test = adjusted(\\\"Westfall\\\"))\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  summary(Kht, test = adjusted(\\\"single-step\\\"))\\n\", Rd_tag = \"RCODE\"), \n-        structure(\"\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/litter.Rd\", class = \"Rd\", meta = list(\n+        structure(\"\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/litter.Rd\", class = \"Rd\", meta = list(\n     docType = \"data\"), prepared = 3L)\n \n methods (list) = structure(list(structure(list(structure(\" Methods for General Linear Hypotheses \", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\title\"), \n     structure(list(structure(\"glht-methods\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\name\"), \n     structure(list(structure(\"summary.glht\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"confint.glht\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"coef.glht\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n@@ -1424,15 +1424,15 @@\n         structure(\"  if (require(\\\"survival\\\") && require(\\\"MASS\\\")) {\\n\", Rd_tag = \"RCODE\"), \n         structure(\"      data(\\\"leuk\\\", package = \\\"MASS\\\")\\n\", Rd_tag = \"RCODE\"), \n         structure(\"      leuk.cox <- coxph(Surv(time) ~ ag + log(wbc), data = leuk)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"      ### set up linear hypotheses\\n\", Rd_tag = \"RCODE\"), \n         structure(\"      lht <- glht(leuk.cox, linfct = diag(length(coef(leuk.cox))))\\n\", Rd_tag = \"RCODE\"), \n         structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"      ### adjusted p values\\n\", Rd_tag = \"RCODE\"), \n         structure(\"      print(summary(lht))\\n\", Rd_tag = \"RCODE\"), \n-        structure(\"  }\\n\", Rd_tag = \"RCODE\"), structure(\"\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/methods.Rd\", class = \"Rd\", meta = list(\n+        structure(\"  }\\n\", Rd_tag = \"RCODE\"), structure(\"\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/methods.Rd\", class = \"Rd\", meta = list(\n     docType = character(0)), prepared = 3L)\n \n mmm (list) = structure(list(structure(list(structure(\"Simultaneous Inference for Multiple Marginal Models\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\title\"), \n     structure(list(structure(\"mmm\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\name\"), \n     structure(list(structure(\"mmm\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"mlf\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"models\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\keyword\"), \n@@ -1639,15 +1639,15 @@\n         structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"m1 <- glm(y2.1 ~ group, family = binomial)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"m2 <- glm(y2.2 ~ group, family = binomial)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"summary(glht(mmm(m1 = m1, m2 = m2), \\n\", Rd_tag = \"RCODE\"), \n         structure(\"             mlf(\\\"groupB = 0\\\")))\\n\", Rd_tag = \"RCODE\"), \n         structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"### use sandwich covariance matrix\\n\", Rd_tag = \"RCODE\"), \n         structure(\"summary(glht(mmm(m1 = m1, m2 = m2), \\n\", Rd_tag = \"RCODE\"), \n         structure(\"             mlf(\\\"groupB = 0\\\"), vcov = sandwich))\\n\", Rd_tag = \"RCODE\"), \n-        structure(\"\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/mmm.Rd\", class = \"Rd\", meta = list(\n+        structure(\"\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/mmm.Rd\", class = \"Rd\", meta = list(\n     docType = character(0)), prepared = 3L)\n \n modelparm (list) = structure(list(structure(list(structure(\" Generic Accessor Function for Model Parameters \", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\title\"), \n     structure(list(structure(\"modelparm\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\name\"), \n     structure(list(structure(\"modelparm\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"misc\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\keyword\"), \n     structure(list(structure(\"\\n\", Rd_tag = \"TEXT\"), structure(\"  Extract model parameters and their covariance matrix as well as \\n\", Rd_tag = \"TEXT\"), \n@@ -1733,15 +1733,15 @@\n             list(structure(\"model parameters\", Rd_tag = \"TEXT\"))), Rd_tag = \"\\\\item\"), \n         structure(\"\\n\", Rd_tag = \"TEXT\"), structure(\"  \", Rd_tag = \"TEXT\"), \n         structure(list(list(structure(\"vcov\", Rd_tag = \"TEXT\")), \n             list(structure(\"covariance matrix of model parameters\", Rd_tag = \"TEXT\"))), Rd_tag = \"\\\\item\"), \n         structure(\"\\n\", Rd_tag = \"TEXT\"), structure(\"  \", Rd_tag = \"TEXT\"), \n         structure(list(list(structure(\"df\", Rd_tag = \"TEXT\")), \n             list(structure(\"degrees of freedom\", Rd_tag = \"TEXT\"))), Rd_tag = \"\\\\item\"), \n-        structure(\"\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\value\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/modelparm.Rd\", class = \"Rd\", meta = list(\n+        structure(\"\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\value\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/modelparm.Rd\", class = \"Rd\", meta = list(\n     docType = character(0)), prepared = 3L)\n \n mtept (list) = structure(list(structure(list(structure(\"\\n\", Rd_tag = \"TEXT\"), \n     structure(\"Multiple Endpoints Data\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\title\"), \n     structure(list(structure(\"mtept\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\name\"), \n     structure(list(structure(\"mtept\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"datasets\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\keyword\"), \n@@ -1774,15 +1774,15 @@\n             structure(\"Drug\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\code\"), \n         structure(\") and control (\", Rd_tag = \"TEXT\"), structure(list(\n             structure(\"Placebo\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\code\"), \n         structure(\") groups, with four\\n\", Rd_tag = \"TEXT\"), \n         structure(\"outcome variables.\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\details\"), \n     structure(list(structure(\"\\n\", Rd_tag = \"TEXT\"), structure(\"  P. H. Westfall, R. D. Tobias, D. Rom, R. D. Wolfinger, Y. Hochberg (1999).\\n\", Rd_tag = \"TEXT\"), \n         structure(\"  \", Rd_tag = \"TEXT\"), structure(list(structure(\"Multiple Comparisons and Multiple Tests Using the SAS System\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\emph\"), \n-        structure(\".\\n\", Rd_tag = \"TEXT\"), structure(\"  Cary, NC: SAS Institute Inc.\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\source\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/mtept.Rd\", class = \"Rd\", meta = list(\n+        structure(\".\\n\", Rd_tag = \"TEXT\"), structure(\"  Cary, NC: SAS Institute Inc.\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\source\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/mtept.Rd\", class = \"Rd\", meta = list(\n     docType = \"data\"), prepared = 3L)\n \n parm (list) = structure(list(structure(list(structure(\" Model Parameters \", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\title\"), \n     structure(list(structure(\"parm\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\name\"), \n     structure(list(structure(\"parm\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"misc\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\keyword\"), \n     structure(list(structure(\"\\n\", Rd_tag = \"TEXT\"), structure(\"  Directly specify estimated model parameters and their covariance matrix.\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\description\"), \n@@ -1838,15 +1838,15 @@\n         structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"beta <- c(V1 = 14.8, V2 = 12.6667, V3 = 7.3333, V4 = 13.1333)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"Sigma <- 6.7099 * (diag(1 / c(20, 3, 3, 15)))\\n\", Rd_tag = \"RCODE\"), \n         structure(\"confint(glht(model = parm(beta, Sigma, 37),\\n\", Rd_tag = \"RCODE\"), \n         structure(\"             linfct = c(\\\"V2 - V1 >= 0\\\", \\n\", Rd_tag = \"RCODE\"), \n         structure(\"                        \\\"V3 - V1 >= 0\\\", \\n\", Rd_tag = \"RCODE\"), \n         structure(\"                        \\\"V4 - V1 >= 0\\\")), \\n\", Rd_tag = \"RCODE\"), \n         structure(\"        level = 0.9)\\n\", Rd_tag = \"RCODE\"), \n-        structure(\"\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/parm.Rd\", class = \"Rd\", meta = list(\n+        structure(\"\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/parm.Rd\", class = \"Rd\", meta = list(\n     docType = character(0)), prepared = 3L)\n \n plot.cld (list) = structure(list(structure(list(structure(\"Plot a cld object\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\title\"), \n     structure(list(structure(\"plot.cld\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\name\"), \n     structure(list(structure(\"plot.cld\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"hplot\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\keyword\"), \n     structure(list(structure(\"\\n\", Rd_tag = \"TEXT\"), structure(\"  Plot information of \", Rd_tag = \"TEXT\"), \n@@ -1996,15 +1996,15 @@\n         structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"  if (require(\\\"nlme\\\") && require(\\\"lme4\\\")) {\\n\", Rd_tag = \"RCODE\"), \n         structure(\"    data(\\\"ergoStool\\\", package = \\\"nlme\\\")\\n\", Rd_tag = \"RCODE\"), \n         structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"    stool.lmer <- lmer(effort ~ Type + (1 | Subject),\\n\", Rd_tag = \"RCODE\"), \n         structure(\"                       data = ergoStool)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"    glme41 <- glht(stool.lmer, mcp(Type = \\\"Tukey\\\"))\\n\", Rd_tag = \"RCODE\"), \n         structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"    old.par <- par(mai=c(1,1,1.5,1), no.readonly=TRUE)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"    plot(cld(glme41))\\n\", Rd_tag = \"RCODE\"), \n-        structure(\"    par(old.par)\\n\", Rd_tag = \"RCODE\"), structure(\"  }\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/plot.cld.Rd\", class = \"Rd\", meta = list(\n+        structure(\"    par(old.par)\\n\", Rd_tag = \"RCODE\"), structure(\"  }\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/plot.cld.Rd\", class = \"Rd\", meta = list(\n     docType = character(0)), prepared = 3L)\n \n recovery (list) = structure(list(structure(list(structure(\" Recovery Time Data Set \", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\title\"), \n     structure(list(structure(\"recovery\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\name\"), \n     structure(list(structure(\"recovery\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"datasets\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\keyword\"), \n     structure(list(structure(\"\\n\", Rd_tag = \"TEXT\"), structure(\"  Recovery time after surgery.\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\description\"), \n@@ -2049,15 +2049,15 @@\n         structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"  ### cf. Westfall et al. (1999, p. 80)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  confint(rht, level = 0.9)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"  ### the same\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  rht <- glht(amod, linfct = mcp(blanket = c(\\\"b1 - b0 >= 0\\\", \\n\", Rd_tag = \"RCODE\"), \n         structure(\"                                             \\\"b2 - b0 >= 0\\\", \\n\", Rd_tag = \"RCODE\"), \n         structure(\"                                             \\\"b3 - b0 >= 0\\\")))\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  confint(rht, level = 0.9)\\n\", Rd_tag = \"RCODE\"), \n-        structure(\"\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/recovery.Rd\", class = \"Rd\", meta = list(\n+        structure(\"\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/recovery.Rd\", class = \"Rd\", meta = list(\n     docType = \"data\"), prepared = 3L)\n \n safeDeparse (closure) = function (obj) \n {\n     tryCatch({\n         deparse(obj)\n     }, error = function(e) {\n@@ -2086,15 +2086,15 @@\n             structure(\"\\n\", Rd_tag = \"TEXT\"), structure(\"    \", Rd_tag = \"TEXT\"), \n             structure(list(list(structure(list(structure(\"age\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\code\")), \n                 list(structure(\"age in years\", Rd_tag = \"TEXT\"))), Rd_tag = \"\\\\item\"), \n             structure(\"\\n\", Rd_tag = \"TEXT\"), structure(\"  \", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\describe\"), \n         structure(\"\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\format\"), \n     structure(list(structure(\"\\n\", Rd_tag = \"TEXT\"), structure(\"  D. G. Kleinbaum, L. L. Kupper, K. E. Muller, A. Nizam, A. (1998),\\n\", Rd_tag = \"TEXT\"), \n         structure(\"  \", Rd_tag = \"TEXT\"), structure(list(structure(\"Applied Regression Analysis and Other Multivariable Methods\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\emph\"), \n-        structure(\",\\n\", Rd_tag = \"TEXT\"), structure(\"  Duxbury Press, North Scituate, MA.\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\source\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/sbp.Rd\", class = \"Rd\", meta = list(\n+        structure(\",\\n\", Rd_tag = \"TEXT\"), structure(\"  Duxbury Press, North Scituate, MA.\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\source\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/sbp.Rd\", class = \"Rd\", meta = list(\n     docType = \"data\"), prepared = 3L)\n \n trees513 (list) = structure(list(structure(list(structure(\" Frankonian Tree Damage Data \", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\title\"), \n     structure(list(structure(\"trees513\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\name\"), \n     structure(list(structure(\"trees513\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"datasets\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\keyword\"), \n     structure(list(structure(\"\\n\", Rd_tag = \"TEXT\"), structure(\"  Damages on young trees caused by deer browsing.\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\description\"), \n@@ -2177,15 +2177,15 @@\n         structure(\", \", Rd_tag = \"TEXT\"), structure(list(structure(\"50\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\bold\"), \n         structure(\"(3), 346--363;\\n\", Rd_tag = \"TEXT\"), structure(\"   See \", Rd_tag = \"TEXT\"), \n         structure(list(structure(\"vignette(\\\"generalsiminf\\\", package = \\\"multcomp\\\")\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\code\"), \n         structure(\".\\n\", Rd_tag = \"TEXT\"), structure(\"\\n\", Rd_tag = \"TEXT\"), \n         structure(\"\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\source\"), \n     structure(list(structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  summary(trees513)\\n\", Rd_tag = \"RCODE\"), \n-        structure(\"\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/trees513.Rd\", class = \"Rd\", meta = list(\n+        structure(\"\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/trees513.Rd\", class = \"Rd\", meta = list(\n     docType = \"data\"), prepared = 3L)\n \n waste (list) = structure(list(structure(list(structure(\" Industrial Waste Data Set \", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\title\"), \n     structure(list(structure(\"waste\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\name\"), \n     structure(list(structure(\"waste\", Rd_tag = \"VERB\")), Rd_tag = \"\\\\alias\"), \n     structure(list(structure(\"datasets\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\keyword\"), \n     structure(list(structure(\"\\n\", Rd_tag = \"TEXT\"), structure(\"  Industrial waste output in a manufactoring plant.\\n\", Rd_tag = \"TEXT\")), Rd_tag = \"\\\\description\"), \n@@ -2243,10 +2243,10 @@\n         structure(\"  K\\n\", Rd_tag = \"RCODE\"), structure(\"  confint(glht(amod, K))\\n\", Rd_tag = \"RCODE\"), \n         structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"  ### same as TukeyHSD\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  TukeyHSD(amod, \\\"temp\\\")\\n\", Rd_tag = \"RCODE\"), \n         structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"  ### set up linear hypotheses for all-pairs of both factors\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  wht <- glht(amod, linfct = mcp(temp = \\\"Tukey\\\", envir = \\\"Tukey\\\"))\\n\", Rd_tag = \"RCODE\"), \n         structure(\"\\n\", Rd_tag = \"RCODE\"), structure(\"  ### cf. Westfall et al. (1999, page 181)\\n\", Rd_tag = \"RCODE\"), \n         structure(\"  summary(wht, test = adjusted(\\\"Shaffer\\\"))\\n\", Rd_tag = \"RCODE\"), \n-        structure(\"\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/1st/multcomp-1.4-23/man/waste.Rd\", class = \"Rd\", meta = list(\n+        structure(\"\\n\", Rd_tag = \"RCODE\")), Rd_tag = \"\\\\examples\")), Rdfile = \"/build/2/multcomp-1.4-23/2nd/man/waste.Rd\", class = \"Rd\", meta = list(\n     docType = \"data\"), prepared = 3L)\n \n"}]}, {"source1": "./usr/lib/R/site-library/multcomp/help/multcomp.rdx", "source2": "./usr/lib/R/site-library/multcomp/help/multcomp.rdx", "unified_diff": null, "details": [{"source1": "multcomp.rdx-content", "source2": "multcomp.rdx-content", "unified_diff": null, "details": [{"source1": "Rscript --vanilla -e 'args <- commandArgs(TRUE); readRDS(args[1])' {}", "source2": "Rscript --vanilla -e 'args <- commandArgs(TRUE); readRDS(args[1])' {}", "unified_diff": "@@ -1,127 +1,127 @@\n $variables\n $variables$adevent\n-[1]  284 3397\n+[1]  286 3398\n \n $variables$cftest\n-[1] 3965 1566\n+[1] 3971 1569\n \n $variables$cholesterol\n-[1] 5816 2558\n+[1] 5827 2561\n \n $variables$cld\n-[1] 8654 4190\n+[1] 8671 4194\n \n $variables$cml\n-[1] 13124  2548\n+[1] 13148  2550\n \n $variables$contrMat\n-[1] 15957  2103\n+[1] 15984  2105\n \n $variables$detergent\n-[1] 18345  2322\n+[1] 18375  2324\n \n $variables$fattyacid\n-[1] 20952  1975\n+[1] 20985  1976\n \n $variables$glht\n-[1] 23209 11886\n+[1] 23245 11888\n \n $variables$litter\n-[1] 35378  2489\n+[1] 35418  2492\n \n $variables$methods\n-[1] 38151  8811\n+[1] 38195  8814\n \n $variables$mmm\n-[1] 47242  7053\n+[1] 47292  7055\n \n $variables$modelparm\n-[1] 54579  3153\n+[1] 54633  3154\n \n $variables$mtept\n-[1] 58014  1561\n+[1] 58071  1563\n \n $variables$parm\n-[1] 59857  2316\n+[1] 59918  2318\n \n $variables$plot.cld\n-[1] 62457  5173\n+[1] 62522  5175\n \n $variables$recovery\n-[1] 67915  2015\n+[1] 67984  2017\n \n $variables$sbp\n-[1] 70211  1266\n+[1] 70284  1269\n \n $variables$trees513\n-[1] 71762  3264\n+[1] 71839  3264\n \n $variables$waste\n-[1] 75309  2350\n+[1] 75388  2352\n \n \n $references\n $references$`env::1`\n-[1]   0 284\n+[1]   0 286\n \n $references$`env::10`\n-[1] 35095   283\n+[1] 35133   285\n \n $references$`env::11`\n-[1] 37867   284\n+[1] 37910   285\n \n $references$`env::12`\n-[1] 46962   280\n+[1] 47009   283\n \n $references$`env::13`\n-[1] 54295   284\n+[1] 54347   286\n \n $references$`env::14`\n-[1] 57732   282\n+[1] 57787   284\n \n $references$`env::15`\n-[1] 59575   282\n+[1] 59634   284\n \n $references$`env::16`\n-[1] 62173   284\n+[1] 62236   286\n \n $references$`env::17`\n-[1] 67630   285\n+[1] 67697   287\n \n $references$`env::18`\n-[1] 69930   281\n+[1] 70001   283\n \n $references$`env::19`\n-[1] 71477   285\n+[1] 71553   286\n \n $references$`env::2`\n-[1] 3681  284\n+[1] 3684  287\n \n $references$`env::20`\n-[1] 75026   283\n+[1] 75103   285\n \n $references$`env::3`\n-[1] 5531  285\n+[1] 5540  287\n \n $references$`env::4`\n-[1] 8374  280\n+[1] 8388  283\n \n $references$`env::5`\n-[1] 12844   280\n+[1] 12865   283\n \n $references$`env::6`\n-[1] 15672   285\n+[1] 15698   286\n \n $references$`env::7`\n-[1] 18060   285\n+[1] 18089   286\n \n $references$`env::8`\n-[1] 20667   285\n+[1] 20699   286\n \n $references$`env::9`\n-[1] 22927   282\n+[1] 22961   284\n \n \n $compressed\n [1] TRUE\n \n"}]}]}, {"source1": "./usr/lib/R/site-library/multcomp/help/paths.rds", "source2": "./usr/lib/R/site-library/multcomp/help/paths.rds", "unified_diff": null, "details": [{"source1": "paths.rds-content", "source2": "paths.rds-content", "unified_diff": null, "details": [{"source1": "Rscript --vanilla -e 'args <- commandArgs(TRUE); readRDS(args[1])' {}", "source2": "Rscript --vanilla -e 'args <- commandArgs(TRUE); readRDS(args[1])' {}", "unified_diff": "@@ -1,22 +1,22 @@\n- [1] \"/build/1st/multcomp-1.4-23/man/adevent.Rd\"    \n- [2] \"/build/1st/multcomp-1.4-23/man/cftest.Rd\"     \n- [3] \"/build/1st/multcomp-1.4-23/man/cholesterol.Rd\"\n- [4] \"/build/1st/multcomp-1.4-23/man/cld.Rd\"        \n- [5] \"/build/1st/multcomp-1.4-23/man/cml.Rd\"        \n- [6] \"/build/1st/multcomp-1.4-23/man/contrMat.Rd\"   \n- [7] \"/build/1st/multcomp-1.4-23/man/detergent.Rd\"  \n- [8] \"/build/1st/multcomp-1.4-23/man/fattyacid.Rd\"  \n- [9] \"/build/1st/multcomp-1.4-23/man/glht.Rd\"       \n-[10] \"/build/1st/multcomp-1.4-23/man/litter.Rd\"     \n-[11] \"/build/1st/multcomp-1.4-23/man/methods.Rd\"    \n-[12] \"/build/1st/multcomp-1.4-23/man/mmm.Rd\"        \n-[13] \"/build/1st/multcomp-1.4-23/man/modelparm.Rd\"  \n-[14] \"/build/1st/multcomp-1.4-23/man/mtept.Rd\"      \n-[15] \"/build/1st/multcomp-1.4-23/man/parm.Rd\"       \n-[16] \"/build/1st/multcomp-1.4-23/man/plot.cld.Rd\"   \n-[17] \"/build/1st/multcomp-1.4-23/man/recovery.Rd\"   \n-[18] \"/build/1st/multcomp-1.4-23/man/sbp.Rd\"        \n-[19] \"/build/1st/multcomp-1.4-23/man/trees513.Rd\"   \n-[20] \"/build/1st/multcomp-1.4-23/man/waste.Rd\"      \n+ [1] \"/build/2/multcomp-1.4-23/2nd/man/adevent.Rd\"    \n+ [2] \"/build/2/multcomp-1.4-23/2nd/man/cftest.Rd\"     \n+ [3] \"/build/2/multcomp-1.4-23/2nd/man/cholesterol.Rd\"\n+ [4] \"/build/2/multcomp-1.4-23/2nd/man/cld.Rd\"        \n+ [5] \"/build/2/multcomp-1.4-23/2nd/man/cml.Rd\"        \n+ [6] \"/build/2/multcomp-1.4-23/2nd/man/contrMat.Rd\"   \n+ [7] \"/build/2/multcomp-1.4-23/2nd/man/detergent.Rd\"  \n+ [8] \"/build/2/multcomp-1.4-23/2nd/man/fattyacid.Rd\"  \n+ [9] \"/build/2/multcomp-1.4-23/2nd/man/glht.Rd\"       \n+[10] \"/build/2/multcomp-1.4-23/2nd/man/litter.Rd\"     \n+[11] \"/build/2/multcomp-1.4-23/2nd/man/methods.Rd\"    \n+[12] \"/build/2/multcomp-1.4-23/2nd/man/mmm.Rd\"        \n+[13] \"/build/2/multcomp-1.4-23/2nd/man/modelparm.Rd\"  \n+[14] \"/build/2/multcomp-1.4-23/2nd/man/mtept.Rd\"      \n+[15] \"/build/2/multcomp-1.4-23/2nd/man/parm.Rd\"       \n+[16] \"/build/2/multcomp-1.4-23/2nd/man/plot.cld.Rd\"   \n+[17] \"/build/2/multcomp-1.4-23/2nd/man/recovery.Rd\"   \n+[18] \"/build/2/multcomp-1.4-23/2nd/man/sbp.Rd\"        \n+[19] \"/build/2/multcomp-1.4-23/2nd/man/trees513.Rd\"   \n+[20] \"/build/2/multcomp-1.4-23/2nd/man/waste.Rd\"      \n attr(,\"first\")\n-[1] 32\n+[1] 34\n"}]}]}]}]}]}]}