[med-svn] [r-bioc-summarizedexperiment] 05/12: Skip test needing unpackaged database

[Andreas Tille]

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tille pushed a commit to branch master
in repository r-bioc-summarizedexperiment.

commit ca0cb42abb398dc1d0bc0b344f81049918f6da74
Author: Andreas Tille <tille at debian.org>
Date:   Tue May 3 18:56:06 2016 +0000

    Skip test needing unpackaged database
---
 debian/changelog                                      |  7 +++++++
 debian/patches/series                                 |  1 +
 .../skip_test_needing_not_packaged_database.patch     | 19 +++++++++++++++++++
 3 files changed, 27 insertions(+)

diff --git a/debian/changelog b/debian/changelog
index d55ee2b..3f0ed12 100644
--- a/debian/changelog
+++ b/debian/changelog
@@ -1,3 +1,10 @@
+r-bioc-summarizedexperiment (1.0.2-3) unstable; urgency=medium
+
+  * Skip test needing unpackaged database (thanks to Gordon Ball
+    <gordon at chronitis.net> for the hint)
+
+ -- Andreas Tille <tille at debian.org>  Tue, 03 May 2016 20:27:21 +0200
+
 r-bioc-summarizedexperiment (1.0.2-2) unstable; urgency=medium
 
   * Add missing Depends to autopkgtest
diff --git a/debian/patches/series b/debian/patches/series
new file mode 100644
index 0000000..af56ecc
--- /dev/null
+++ b/debian/patches/series
@@ -0,0 +1 @@
+skip_test_needing_not_packaged_database.patch
diff --git a/debian/patches/skip_test_needing_not_packaged_database.patch b/debian/patches/skip_test_needing_not_packaged_database.patch
new file mode 100644
index 0000000..9e0660c
--- /dev/null
+++ b/debian/patches/skip_test_needing_not_packaged_database.patch
@@ -0,0 +1,19 @@
+Description: Skip test needing unpackaged database
+Author: Andreas Tille <tille at debian.org>
+Last-Update: Tue, 03 May 2016 20:27:21 +0200
+
+--- a/inst/unitTests/test_makeSummarizedExperimentFromExpressionSet.R
++++ b/inst/unitTests/test_makeSummarizedExperimentFromExpressionSet.R
+@@ -172,12 +172,5 @@ test_GenomicRanges_SummarizedExperiment_
+             makeSummarizedExperimentFromExpressionSet(ExpressionSet(),
+                 geneRangeMapper(NULL))))
+ 
+-    ## valid object from sample ExpressionSet
+-    se2 <- makeSummarizedExperimentFromExpressionSet(eset1,
+-        geneRangeMapper("TxDb.Hsapiens.UCSC.hg19.knownGene"))
+-    checkTrue(validObject(se2))
+-
+-    ## Granges returned have rownames that were from the featureNames
+-    checkTrue(all(rownames(rowRanges(se2)) %in% featureNames(eset1)))
+ }
+ 

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