@@ -1,14 +1,14 @@

 Package: MotifDb

 Type: Package

 Title: An Annotated Collection of Protein-DNA Binding Sequence Motifs

-Version: 1.19.7

-Date: 2017-09-12

+Version: 1.19.8

+Date: 2017-09-18

 Author: Paul Shannon, Matt Richards

 Maintainer: Paul Shannon <pshannon@systemsbiology.org>

 Depends: R (>= 2.15.0), methods, BiocGenerics, S4Vectors, IRanges, Biostrings

 Suggests: RUnit, seqLogo, MotIV

-Imports: rtracklayer

-Description: More than 2000 annotated position frequency matrices from nine public sources, for multiple organisms.

+Imports: rtracklayer, splitstackshape

+Description: More than 8000 annotated position frequency matrices from 13 public sources, for multiple organisms.

 License: Artistic-2.0 | file LICENSE

 License_is_FOSS: no

 License_restricts_use: yes

@@ -335,7 +335,10 @@ matrixToJasparText <- function (matrices)

       s[index] <- ""

       index <- index + 1

-    } # for name

+  } # for name

+

+  # Remove the last blank line

+  s <- s[-length(s)]

   invisible (s)

@@ -2,7 +2,9 @@ library (MotifDb)

 library (RUnit)

 library (MotIV)

 library (seqLogo)

-#------------------------------------------------------------------------------------------------------------------------

+#----------------------------------------------------------------------------------------------------

+printf <- function(...) print(noquote(sprintf(...)))

+#----------------------------------------------------------------------------------------------------

 runTests = function ()

 {

   test.emptyCtor ()

@@ -121,7 +123,9 @@ test.noNAorganisms = function ()

 {

   print ('--- test.noNAorganisms')

   #checkEquals (which (is.na (mcols(MotifDb)$organism)), integer (0))

-  checkEquals(sum(is.na (mcols(MotifDb)$organism)), 1050)

+

+  # There's a fair number of NA organisms, mostly due to including the homer DB

+  checkEquals(sum(is.na (mcols(MotifDb)$organism)), 366)

 } # test.noNAorganisms

 #------------------------------------------------------------------------------------------------------------------------

deleted file mode 100644

@@ -1 +0,0 @@

-hi