Comments (7)
from atacseqqc.
I cannot find .R in my home directory. I made a new directory ~/.R/Makevars and added new line "LDFLAGS: -L/path/to/you/local/lib". It didn't work at all.
Then I downloaded MotIV package and modified Makevars (add new line LDFLAGS: -L/path/to/you/local/lib) in its src directory, then installed it with R CMD INSTALL. However, the Makevers.in file in src made new Makevars file and overlapped the old one. So this attempt failed again.
from atacseqqc.
how do you set /path/to/you/local/lib?
from atacseqqc.
In .bashrc:
export PATH=/home/wangjw/bin/gsl/bin:$PATH
export LD_LIBRARY_PATH=/home/wangjw/bin/gsl/lib:$LD_LIBRARY_PATH
I cannot find .R in my home directory. I made a new directory ~/.R/Makevars and added new line "LDFLAGS: -L/home/wangjw/bin/gsl/lib"
from atacseqqc.
try to add one more line in your ~/.R/Makevars:
CFLAGS=-I/path/to/your/gsl/include
from atacseqqc.
It does not work. It seems that BiocManager cannot find my ~/.R/Makevars.
from atacseqqc.
It works for me now, by setting ~/.R/Makevars
LDFLAGS=-L/path/to/your/gsl/lib -lgsl -lgslcblas
CFLAGS=-I/path/to/your/gsl/include
PKG_LIBS=-L/path/to/your/gsl/lib
Then add following to ~/.bashrc
export PATH=/path/to/your/gsl/bin:$PATH
export LD_LIBRARY_PATH=/path/to/your/gsl/2.5/lib:/path/to/your/gsl/include:$LD_LIBRARY_PATH
from atacseqqc.
Related Issues (20)
- shiftGAlignmentsList() error HOT 1
- splitBam return a asBam error HOT 3
- How do I read a BAM fileοΌ HOT 1
- Problem with shiftGAlignmentsList() HOT 2
- splitGAlignmentsByCut Error in value[[3L]](cond) : 'mergeBam' 'destination' exists, 'overwrite' is FALSE destination: splitBam/NucleosomeFree.bam HOT 8
- splitBam fragment sizes for nucleosome-free DNA HOT 2
- Processing multiple bam files at once HOT 2
- Question about bamQC HOT 1
- Question about the read filtering by bamQC HOT 1
- What does the x axis mean for Nucleosome Free Regions (NFR) score plot? HOT 3
- Strange TSS Enrichment Result HOT 1
- Error: subscript contains invalid names for splitGAlignmentsByCut() function HOT 8
- NA values in sigs makes heatmap not completed HOT 4
- different TSS.filter values affect the signals showing on the heatmap HOT 1
- Output bam files become smaller after shiftGAlignmentsList HOT 4
- Read the shifted bam and continue the QC analysis HOT 7
- Interpreting the outputs of the function TSSEscore() comparing to the reference from ENCODE HOT 5
- should the original bam be deduped and chrM deleted for the analysis of fragSizeDist()? HOT 2
- Error in TSSEscore calculation HOT 15
- Optimizing Time and Memory Usage for Large BAM Files HOT 6
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from atacseqqc.