Displaying 3 results from an estimated 3 matches for "biocbuild2".
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2010 Nov 10
1
installed.packages Error: subscript out of bounds
...subscript out of bounds
After some investigation we discovered that the cause of this failure
was that 1 of the 890 packages currently installed on the machine
(Windows Server 2003 R2) had its DESCRIPTION file empty:
E:\biocbld\bbs-2.7-bioc\R\library>ls -al DLBCL
total 1
drwxr-xr-x+ 1 biocbuild2 root 0 2010-11-08 14:11 .
drwxr-xr-x+ 1 biocbuild2 root 0 2010-11-10 00:14 ..
-rwxr-xr-x+ 1 biocbuild2 root 0 2010-11-08 14:11 DESCRIPTION
-rwxr-xr-x+ 1 biocbuild2 root 357 2010-11-08 14:11 INDEX
drwxr-xr-x+ 1 biocbuild2 root 0 2010-11-08 14:11 data
drwxr-xr-x+ 1 biocbuild2 r...
2010 Nov 12
1
installing dependencies: binary vs source
...9;http://cran.fhcrc.org/bin/windows/contrib/2.12/multtest_2.6.0.zip'
Content type 'application/zip' length 1645590 bytes (1.6 Mb)
opened URL
downloaded 1.6 Mb
package 'multtest' successfully unpacked and MD5 sums checked
The downloaded packages are in
C:\Users\biocbuild2\AppData\Local\Temp\2\RtmpPzRqzb\downloaded_packages
Note the warning that a dependency is missing. But still the package
got installed even though it won't be loadable.
Now installing from source on Windows:
> install.packages("multtest", type="source")
Warning:...
2010 Oct 11
1
'R CMD build' not cleaning the src/ folder on Windows
...ettes
* creating vignettes ... OK
* cleaning src
* checking for LF line-endings in source and make files
* checking for empty or unneeded directories
* building 'BUS_1.5.0.tar.gz'
D:\biocbld\bbs-2.7-bioc>tar ztvf BUS_1.5.0.tar.gz --wildcards '*.o'
-rwxr--r-- biocbuild2/root 16503 2010-10-10 22:15 BUS/src/BUS.o
Packages with a Makefile in src/ don't seem to be affected.
This is with R 2.12.0 RC (2010-10-07 r53227).
Thanks,
H.
--
Herv? Pag?s
Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fai...