[Genabel-commits] r816 - pkg/GenABEL/inst/unitTests
noreply at r-forge.r-project.org
noreply at r-forge.r-project.org
Tue Dec 6 02:56:31 CET 2011
Author: yurii
Date: 2011-12-06 02:56:31 +0100 (Tue, 06 Dec 2011)
New Revision: 816
Modified:
pkg/GenABEL/inst/unitTests/report.html
pkg/GenABEL/inst/unitTests/report.txt
pkg/GenABEL/inst/unitTests/reportSummary.txt
Log:
final version before submitting to CRAN (subject to re-submission of any concerns raised)
Modified: pkg/GenABEL/inst/unitTests/report.html
===================================================================
--- pkg/GenABEL/inst/unitTests/report.html 2011-12-06 01:23:17 UTC (rev 815)
+++ pkg/GenABEL/inst/unitTests/report.html 2011-12-06 01:56:31 UTC (rev 816)
@@ -1,9 +1,9 @@
<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN"
"http://www.w3.org/TR/html4/transitional.dtd">
-<html><head><title>RUNIT TEST PROTOCOL--Thu Aug 25 16:20:06 2011</title>
+<html><head><title>RUNIT TEST PROTOCOL--Mon Dec 5 23:16:08 2011</title>
</head>
-<body><h1 TRUE>RUNIT TEST PROTOCOL--Thu Aug 25 16:20:06 2011</h1>
-<p>Number of test functions: 13</p>
+<body><h1 TRUE>RUNIT TEST PROTOCOL--Mon Dec 5 23:16:08 2011</h1>
+<p>Number of test functions: 18</p>
<p>Number of errors: 0</p>
<p>Number of failures: 0</p>
<hr>
@@ -15,7 +15,7 @@
<th width="20%">Failures</th>
</tr>
<tr><td><a href="#GenABEL unit testing">GenABEL unit testing</a></td>
-<td>13</td>
+<td>18</td>
<td>0</td>
<td>0</td>
</tr>
@@ -23,7 +23,7 @@
<hr>
<h3 TRUE>Details</h3>
<p><a name="GenABEL unit testing"><h5 TRUE>Test Suite: GenABEL unit testing</h5>
-</a>Test function regexp: ^test.+<br/>Test file regexp: ^runit.+\.[rR]$<br/>Involved directory:<br/>/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests<br/><ul><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.convert.snp.R">Test file: runit.convert.snp.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.convert.snp.R_test.convert.snp">test.convert.snp: (4 checks) ... OK (1.04 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.convert.snp.ped.R">Test file: runit.convert.snp.ped.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.convert.snp.ped.R_test.convert.snp.ped">test.convert.snp.ped: (0 checks) ... OK (0.04 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.descriptives.trait.R">Test file: runit.descriptives.trait.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.descriptives.trait.R_test.descriptives.trait">test.descriptives.trait: (1 checks) ... OK (0.43 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.findRelatives.R">Test file: runit.findRelatives.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.findRelatives.R_test.findRelatives">test.findRelatives: (10 checks) ... OK (57.57 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.impute2xxx.R">Test file: runit.impute2xxx.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.impute2xxx.R_test.impute2databel">test.impute2databel: (23 checks) ... OK (0.66 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.impute2xxx_large.R">Test file: runit.impute2xxx_large.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.impute2xxx_large.R_test.impute2xxx_large">test.impute2xxx_large: (0 checks) ... OK (0 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.iterator.R">Test file: runit.iterator.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.iterator.R_test.qtscore">test.qtscore: (0 checks) ... OK (0 seconds)<br/></a></li><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.iterator.R_test.summary_snp_data">test.summary_snp_data: (3 checks) ... OK (15.22 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.mach2databel.R">Test file: runit.mach2databel.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.mach2databel.R_test.mach2databel">test.mach2databel: (8 checks) ... OK (0.67 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.polygenic.R">Test file: runit.polygenic.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.polygenic.R_test.polygenic.Bug1322">test.polygenic.Bug1322: (2 checks) ... OK (5.09 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.polylik.R">Test file: runit.polylik.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.polylik.R_test.polylik">test.polylik: (6 checks) ... OK (8.67 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.recodeChromosome.R">Test file: runit.recodeChromosome.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.recodeChromosome.R_test.recodeChromosome">test.recodeChromosome: (8 checks) ... OK (0.4 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.strandModify.R">Test file: runit.strandModify.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.strandModify.R_test.strandModify">test.strandModify: (2 checks) ... OK (0.09 seconds)<br/></a></li></ul></li></ul><hr>
+</a>Test function regexp: ^test.+<br/>Test file regexp: ^runit.+\.[rR]$<br/>Involved directory:<br/>/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests<br/><ul><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.convert.snp.R">Test file: runit.convert.snp.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.convert.snp.R_test.convert.snp">test.convert.snp: (4 checks) ... OK (0.9 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.convert.snp.ped.R">Test file: runit.convert.snp.ped.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.convert.snp.ped.R_test.convert.snp.ped">test.convert.snp.ped: (0 checks) ... OK (0.01 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.descriptives.trait.R">Test file: runit.descriptives.trait.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.descriptives.trait.R_test.descriptives.trait">test.descriptives.trait: (1 checks) ... OK (0.37 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.exports.R">Test file: runit.exports.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.exports.R_test.exports">test.exports: (169 checks) ... OK (3.07 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.findRelatives.R">Test file: runit.findRelatives.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.findRelatives.R_test.findRelatives">test.findRelatives: (10 checks) ... OK (55.56 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.impute2xxx.R">Test file: runit.impute2xxx.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.impute2xxx.R_test.impute2databel">test.impute2databel: (23 checks) ... OK (0.57 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.impute2xxx_large.R">Test file: runit.impute2xxx_large.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.impute2xxx_large.R_test.impute2xxx_large">test.impute2xxx_large: (0 checks) ... OK (0 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.iterator.R">Test file: runit.iterator.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.iterator.R_test.qtscore">test.qtscore: (0 checks) ... OK (0 seconds)<br/></a></li><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.iterator.R_test.summary_snp_data">test.summary_snp_data: (3 checks) ... OK (3.96 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.mach2databel.R">Test file: runit.mach2databel.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.mach2databel.R_test.mach2databel">test.mach2databel: (8 checks) ... OK (0.13 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.merge.R">Test file: runit.merge.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.merge.R_test.merge.bug1641">test.merge.bug1641: (0 checks) ... OK (0.19 seconds)<br/></a></li><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.merge.R_test.merge.bug1676">test.merge.bug1676: (2 checks) ... OK (0.18 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.mmscore.R">Test file: runit.mmscore.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.mmscore.R_test.exports">test.exports: (1 checks) ... OK (0.69 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.polygenic.R">Test file: runit.polygenic.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.polygenic.R_test.polygenic.Bug1322">test.polygenic.Bug1322: (2 checks) ... OK (1.12 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.polylik.R">Test file: runit.polylik.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.polylik.R_test.polylik">test.polylik: (6 checks) ... OK (7.3 seconds)<br/></a></li></ul></li></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.recodeChromosome.R">Test file: runit.recodeChromosome.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.recodeChromosome.R_test.recodeChromosome">test.recodeChromosome: (8 checks) ... OK (0.13 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.sortmap.internal.R">Test file: runit.sortmap.internal.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.sortmap.internal.R_test.sortmap.internal.bug1673">test.sortmap.internal.bug1673: (1 checks) ... OK (0 seconds)<br/></a></li></ul></li><li><a href="/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.strandModify.R">Test file: runit.strandModify.R</a><ul><li><a name="GenABEL unit testing__Users_yuryaulchenko_eclipse_workspace_genabel_pkg_GenABEL_tests_.._inst_unitTests_runit.strandModify.R_test.strandModify">test.strandModify: (2 checks) ... OK (0.05 seconds)<br/></a></li></ul></li></ul><hr>
<table border="0" width="80%" >
<tr><th>Name</th>
<th>Value</th>
Modified: pkg/GenABEL/inst/unitTests/report.txt
===================================================================
--- pkg/GenABEL/inst/unitTests/report.txt 2011-12-06 01:23:17 UTC (rev 815)
+++ pkg/GenABEL/inst/unitTests/report.txt 2011-12-06 01:56:31 UTC (rev 816)
@@ -1,12 +1,12 @@
-RUNIT TEST PROTOCOL -- Thu Aug 25 16:20:06 2011
+RUNIT TEST PROTOCOL -- Mon Dec 5 23:16:08 2011
***********************************************
-Number of test functions: 13
+Number of test functions: 18
Number of errors: 0
Number of failures: 0
1 Test Suite :
-GenABEL unit testing - 13 test functions, 0 errors, 0 failures
+GenABEL unit testing - 18 test functions, 0 errors, 0 failures
@@ -19,38 +19,51 @@
/Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests
---------------------------
Test file: /Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.convert.snp.R
-test.convert.snp: (4 checks) ... OK (1.04 seconds)
+test.convert.snp: (4 checks) ... OK (0.9 seconds)
---------------------------
Test file: /Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.convert.snp.ped.R
-test.convert.snp.ped: (0 checks) ... OK (0.04 seconds)
+test.convert.snp.ped: (0 checks) ... OK (0.01 seconds)
---------------------------
Test file: /Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.descriptives.trait.R
-test.descriptives.trait: (1 checks) ... OK (0.43 seconds)
+test.descriptives.trait: (1 checks) ... OK (0.37 seconds)
---------------------------
+Test file: /Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.exports.R
+test.exports: (169 checks) ... OK (3.07 seconds)
+---------------------------
Test file: /Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.findRelatives.R
-test.findRelatives: (10 checks) ... OK (57.57 seconds)
+test.findRelatives: (10 checks) ... OK (55.56 seconds)
---------------------------
Test file: /Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.impute2xxx.R
-test.impute2databel: (23 checks) ... OK (0.66 seconds)
+test.impute2databel: (23 checks) ... OK (0.57 seconds)
---------------------------
Test file: /Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.impute2xxx_large.R
test.impute2xxx_large: (0 checks) ... OK (0 seconds)
---------------------------
Test file: /Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.iterator.R
test.qtscore: (0 checks) ... OK (0 seconds)
-test.summary_snp_data: (3 checks) ... OK (15.22 seconds)
+test.summary_snp_data: (3 checks) ... OK (3.96 seconds)
---------------------------
Test file: /Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.mach2databel.R
-test.mach2databel: (8 checks) ... OK (0.67 seconds)
+test.mach2databel: (8 checks) ... OK (0.13 seconds)
---------------------------
+Test file: /Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.merge.R
+test.merge.bug1641: (0 checks) ... OK (0.19 seconds)
+test.merge.bug1676: (2 checks) ... OK (0.18 seconds)
+---------------------------
+Test file: /Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.mmscore.R
+test.exports: (1 checks) ... OK (0.69 seconds)
+---------------------------
Test file: /Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.polygenic.R
-test.polygenic.Bug1322: (2 checks) ... OK (5.09 seconds)
+test.polygenic.Bug1322: (2 checks) ... OK (1.12 seconds)
---------------------------
Test file: /Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.polylik.R
-test.polylik: (6 checks) ... OK (8.67 seconds)
+test.polylik: (6 checks) ... OK (7.3 seconds)
---------------------------
Test file: /Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.recodeChromosome.R
-test.recodeChromosome: (8 checks) ... OK (0.4 seconds)
+test.recodeChromosome: (8 checks) ... OK (0.13 seconds)
---------------------------
+Test file: /Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.sortmap.internal.R
+test.sortmap.internal.bug1673: (1 checks) ... OK (0 seconds)
+---------------------------
Test file: /Users/yuryaulchenko/eclipse_workspace/genabel/pkg/GenABEL/tests/../inst/unitTests/runit.strandModify.R
-test.strandModify: (2 checks) ... OK (0.09 seconds)
+test.strandModify: (2 checks) ... OK (0.05 seconds)
Modified: pkg/GenABEL/inst/unitTests/reportSummary.txt
===================================================================
--- pkg/GenABEL/inst/unitTests/reportSummary.txt 2011-12-06 01:23:17 UTC (rev 815)
+++ pkg/GenABEL/inst/unitTests/reportSummary.txt 2011-12-06 01:56:31 UTC (rev 816)
@@ -1,9 +1,9 @@
-RUNIT TEST PROTOCOL -- Thu Aug 25 16:20:06 2011
+RUNIT TEST PROTOCOL -- Mon Dec 5 23:16:08 2011
***********************************************
-Number of test functions: 13
+Number of test functions: 18
Number of errors: 0
Number of failures: 0
1 Test Suite :
-GenABEL unit testing - 13 test functions, 0 errors, 0 failures
+GenABEL unit testing - 18 test functions, 0 errors, 0 failures
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