[med-svn] r19229 - in trunk/packages/R/r-bioc-000-dependency-scheme: . 3.1
Andreas Tille
tille at moszumanska.debian.org
Wed May 13 13:35:09 UTC 2015
Author: tille
Date: 2015-05-13 13:35:08 +0000 (Wed, 13 May 2015)
New Revision: 19229
Added:
trunk/packages/R/r-bioc-000-dependency-scheme/3.1/
trunk/packages/R/r-bioc-000-dependency-scheme/3.1/BioC_3.1-dependency-tree.ditaa
Removed:
trunk/packages/R/r-bioc-000-dependency-scheme/3.1/BioC_3.0-dependency-tree.ditaa
Modified:
trunk/packages/R/r-bioc-000-dependency-scheme/3.1/Makefile
Log:
Add dependency tree graph for Bioconductor 3.1
Deleted: trunk/packages/R/r-bioc-000-dependency-scheme/3.1/BioC_3.0-dependency-tree.ditaa
===================================================================
--- trunk/packages/R/r-bioc-000-dependency-scheme/3.0/BioC_3.0-dependency-tree.ditaa 2015-05-10 07:09:47 UTC (rev 19201)
+++ trunk/packages/R/r-bioc-000-dependency-scheme/3.1/BioC_3.0-dependency-tree.ditaa 2015-05-13 13:35:08 UTC (rev 19229)
@@ -1,93 +0,0 @@
- +------------+
- | cummerbund |
- +------------+
- ^
- |
- +---+--+
- | gviz |
- +------+
- ^
- +-------+ |
- | edger | +------+-----+
- +-------+ | biovizbase |
- ^ +------+-----+
- | ^
- +---+---+ +------------+ +--------+ |
- | limma | | hilbertvis | | qvalue | +----------+--------+
- +-------+ +------------+ +--------+ | variantannotation |
- ^ +-------------------+
- : ^ ^
- : | |
- +------+------+ +------------+----+ +-+---------+
- |cAAA go.db | | genomicfeatures | | bsgenome |
- +-------------+ +--------------+ +-----------------+ +-----------+
- | altcdfenvs | ^ ^ ^
- +--------------+ | | |
- ^ ^ ^ | +--+-------+--+
- | | | | | rtracklayer |
- +----------------------------------+ | | | +-------------+
- | | | | ^
- | +-----------++ | +-------------+ |
- | | makecdfenv | | +-----------+ | +----------+--------+
- | +------------+ | +-------------------------------->| shortread |<-------|---------------+ genomicalignments |
- | ^ | | +-----------+ | +-------------------+
- | | | | | ^ ^
- | | | | | | |
- | | | | | +---------+-+ |
- | | +-------------------------+ +------------------------------------->| rsamtools | |
- | | | | | +-----------+ |
-+------+-----+ +------+---+ | +--+-----+---+ +--------------+ +----+----+ | |
-| hypergraph | | affy |<-----------+ | | biostrings | |cAAA annotate | | biomart | | |
-+------------+ +----------+ | | +------------+ +--------------+ +---------+ | |
- ^ ^ ^ ^ | | ^ ^ ^ | |
- | | | | | | | | | | |
- +---+---+ +----------------+ | ++--------+ | | | +------+--------+ | +----------+----+ |
- | graph | | preprocesscore | | | affyio | | | | | annotationdbi |----+ | genomicranges | |
- +-------+ +----------------+ | +---------+ | | | +---------------+ +---------------+ |
- ^ | | | | ^ ^ ^ ^ |
- | | | | | | | | | |
- | | | | +------------------|-------------+ | | | |
- | | | | | | | | | |
- | | | | | | +----------------------|---------------+ + |
- | | | | | | | | +---------+ |
- | | | | | | | | | |
- | | | | | +---+---+-+ +-+-----------++ |
- | | | | | | xvector | | genomeinfodb | |
- | | | | | +---------+ +--------------+ |
- | | | | | ^ ^ |
- | | | | | | | |
- | +---------------+ +-+--+--+-+ +---+-----+ | |
- | | biocinstaller | | biobase | | iranges +-------------------------+ |
- | +---------------+ +---------+ +---------+ |
- | ^ ^ |
- | | | |
- +---------------------------------------------+ | | |
- | | | |
- | | +--+--------+ +--------------+ |
- | | +----------------->| s4vectors | | biocparallel +-----------------+
- | | | +-----------+ +--------------+
- | | | ^
- | | | |
- | | | +-------------------------------------------------------+
- | | | |
- +--+--+--+---+-+ +----------+
- | biocgenerics +------------------------------------------------------------------>| snpstats |
- +--------------+ +----------+
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
Added: trunk/packages/R/r-bioc-000-dependency-scheme/3.1/BioC_3.1-dependency-tree.ditaa
===================================================================
--- trunk/packages/R/r-bioc-000-dependency-scheme/3.1/BioC_3.1-dependency-tree.ditaa (rev 0)
+++ trunk/packages/R/r-bioc-000-dependency-scheme/3.1/BioC_3.1-dependency-tree.ditaa 2015-05-13 13:35:08 UTC (rev 19229)
@@ -0,0 +1,93 @@
+ +------------+
+ | cummerbund |
+ +------------+
+ ^
+ |
+ +---+--+
+ | gviz |
+ +------+
+ ^
+ +-------+ |
+ | edger | +------+-----+
+ +-------+ | biovizbase |
+ ^ +------+-----+
+ | ^
+ +---+---+ +------------+ +--------+ |
+ | limma | | hilbertvis | | qvalue | +----------+--------+
+ +-------+ +------------+ +--------+ | variantannotation |
+ ^ +-------------------+
+ : ^ ^
+ : | |
+ +------+------+ +------------+----+ +-+---------+
+ |cAAA go.db | | genomicfeatures | | bsgenome |
+ +-------------+ +--------------+ +-----------------+ +-----------+
+ | altcdfenvs | ^ ^ ^
+ +--------------+ | | |
+ ^ ^ ^ | +--+-------+--+
+ | | | | | rtracklayer |
+ +----------------------------------+ | | | +-------------+
+ | | | | ^
+ | +-----------++ | +-------------+ |
+ | | makecdfenv | | +-----------+ | +----------+--------+
+ | +------------+ | +-------------------------------->| shortread |<-------|---------------+ genomicalignments |
+ | ^ | | +-----------+ | +-------------------+
+ | | | | | ^ ^
+ | | | | | | |
+ | | | | | +---------+-+ |
+ | | +-------------------------+ +------------------------------------->| rsamtools | |
+ | | | | | | +-----------+ |
++------+-----+ +-------+--+ | +--+-----+---+ +------------+ +----+----+ | |
+| hypergraph | | affy |<-----------+ | | biostrings | | annotate | | biomart | | |
++------------+ +----------+ | | +------------+ +------------+ +---------+ | |
+ ^ ^ ^ ^ | | ^ ^ ^ | |
+ | | | | | | | | | | |
+ +---+---+ +----------------+ | ++--------+ | | | +------+--------+ | +----------+----+ |
+ | graph | | preprocesscore | | | affyio | | | | | annotationdbi |----+ | genomicranges | |
+ +-------+ +----------------+ | +---------+ | | | +---------------+ +---------------+ |
+ ^ | | | | ^ ^ ^ ^ |
+ | | | | | | | | | |
+ | +---------------+ | | +------------------|-------------+ | | | |
+ | | biocinstaller | | | | | | | | |
+ | +---------------+ | | | | +----------------------|---------------+ + |
+ | | | | | | | +---------+ |
+ | | | | | | | | |
+ | | | | +---+---+-+ +-+-----------++ |
+ | | | | | xvector | | genomeinfodb | |
+ | | | | +---------+ +--------------+ |
+ | | | | ^ ^ |
+ | | | | | | |
+ | +----------+ +-+--+--+-+ +---+-----+ | |
+ | | multtest |<-------+ biobase | | iranges +-------------------------+ |
+ | +----------+ +---------+ +---------+ |
+ | ^ ^ |
+ | | | |
+ +---------------------------------------------+ | | |
+ | | | |
+ | | +--+--------+ +--------------+ |
+ | | +----------------->| s4vectors | | biocparallel +-----------------+
+ | | | +-----------+ +--------------+
+ | | | ^
+ | | | |
+ | | | +-------------------------------------------------------+
+ | | | |
+ +--+--+--+---+-+ +----------+
+ | biocgenerics +------------------------------------------------------------------>| snpstats |
+ +--------------+ +----------+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
Modified: trunk/packages/R/r-bioc-000-dependency-scheme/3.1/Makefile
===================================================================
--- trunk/packages/R/r-bioc-000-dependency-scheme/3.0/Makefile 2015-05-10 07:09:47 UTC (rev 19201)
+++ trunk/packages/R/r-bioc-000-dependency-scheme/3.1/Makefile 2015-05-13 13:35:08 UTC (rev 19229)
@@ -1,6 +1,6 @@
#!/usr/bin/make -f
-NAME:=BioC_3.0-dependency-tree
+NAME:=BioC_3.1-dependency-tree
all: png
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