[med-svn] r18302 - in trunk/packages/R/r-bioc-000-dependency-scheme: . 3.0
Andreas Tille
tille at moszumanska.debian.org
Wed Oct 15 22:41:54 UTC 2014
Author: tille
Date: 2014-10-15 22:41:53 +0000 (Wed, 15 Oct 2014)
New Revision: 18302
Added:
trunk/packages/R/r-bioc-000-dependency-scheme/3.0/
trunk/packages/R/r-bioc-000-dependency-scheme/3.0/BioC_3.0-dependency-tree.ditaa
trunk/packages/R/r-bioc-000-dependency-scheme/3.0/Makefile
Log:
BioC 3.0 has a more complex dependency scheme
Added: trunk/packages/R/r-bioc-000-dependency-scheme/3.0/BioC_3.0-dependency-tree.ditaa
===================================================================
--- trunk/packages/R/r-bioc-000-dependency-scheme/3.0/BioC_3.0-dependency-tree.ditaa (rev 0)
+++ trunk/packages/R/r-bioc-000-dependency-scheme/3.0/BioC_3.0-dependency-tree.ditaa 2014-10-15 22:41:53 UTC (rev 18302)
@@ -0,0 +1,60 @@
+ +-------+ +-----------+ +-------------+
+ | gviz | | shortread | | rtracklayer |
+ +-------+ +-----------+ +-------------+
+ ^ ^ ^
+ | | |
+ +-----+------+ +--+-------------+--+
+ +--------------+ | biovizbase |<-------------+ genomicalignments |
+ | altcdfenvs | +------------+ +-------------------+
+ +--------------+ ^ ^ ^
+ ^ ^ ^ | | |
+ | | | +-------+-----------+ +-----+----+ |
+ +----------------------------------+ | | | variantannotation |<-+ | bsgenome | |
+ | | | +-------------------+ | +----------+ |
+ | +-----------++ | ^ | ^ |
+ | | makecdfenv | | | | | |
+ | +------------+ | +--------+--------+ +--+------+-+ |
+ | ^ | +-------------------------------------->| genomicfeatures | | rsamtools | |
+ | | | | +-----------------+ +-----------+ |
+ | | | | ^ ^ ^ ^ |
+ | | | | | | | | |
+ | | +-------------------------+ | +-----------------------------------------------------------+ | |
+ | +------+---+ | | | | | | |
++------+-----+ | affy | +--+--+--+---+ +----------+ +---------+ | | | |
+| hypergraph | +----------+ | biostrings | | annotate | | biomart +-----+ | | |
++------------+ ^ ^ ^ ^ +------------+ +----------+ +---------+ | | |
+ ^ | | | | ^ ^ ^ | | |
+ | +-----------+ | | +-----------------+ | | | | | |
+ | | | | | | | | | | |
+ +---+---+ +------+---------+ | | | +-----+---+ +------+--------+ | | | |
+ | graph | | preprocesscore | | | | | xvector | | annotationdbi |----+ | | |
+ +-------+ +----------------+ | | | +---------+ +---------------+ | | |
+ ^ | | | ^ ^ ^ ^ | | |
+ | | | | | | | | +---------------+ | |
+ | | | | +------------------|-------------+ | | | | |
+ | +-------------+ | | | | +-------------+ | | +----------------------------+ |
+ | | | | | | | | | | |
+ | | | | | | | | +------+----+---+ |
+ | | | | | | | | | genomicranges | |
+ | | | | | | | | +---------------+ |
+ | | | | | | | | ^ |
+ | | | | | | | | | |
+ | | | | | | | | +---------+ |
+ | | | | | | | | | |
+ | +------+--------+ +---+-----+ +----+--+-+ +-----+--++ +-------+--+---+ |
+ | | biocinstaller | | affyio | | biobase | | iranges +------>| genomeinfodb | |
+ | +---------------+ +---------+ +---------+ +---------+ +--------------+ |
+ | ^ ^ ^ |
+ | | | | |
+ +---------------------------------------------+ | +-------------------+ | |
+ | | | | |
+ | | | | +--------------+ |
+ | | | +-------------------------------------+ | biocparallel +--------------------------------------+
+ | | | | +--------------+
+ | | | | ^
+ | | | | |
+ | | | | +-------------------------------------------------------+
+ | | | | |
+ +--+--+--+-+-+-+
+ | biocgenerics |
+ +--------------+
\ No newline at end of file
Added: trunk/packages/R/r-bioc-000-dependency-scheme/3.0/Makefile
===================================================================
--- trunk/packages/R/r-bioc-000-dependency-scheme/3.0/Makefile (rev 0)
+++ trunk/packages/R/r-bioc-000-dependency-scheme/3.0/Makefile 2014-10-15 22:41:53 UTC (rev 18302)
@@ -0,0 +1,14 @@
+#!/usr/bin/make -f
+
+NAME:=BioC_3.0-dependency-tree
+
+all: png
+
+png: $(NAME).png
+
+%.png: %.ditaa
+ rm -f $@
+ ditaa $^
+
+clean:
+ rm -f $(NAME).png
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