smartie-sv
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zeeev
calling SVs from Blasr contig level alignments
When I try to make the tool, I get multiple errors leading it to fail (make output attached). Any suggestions what could be causing this and how it can be...
Hi, when I run 'cd ./smartie-sv-master/ && make', it prompts an error message like this: make[1]: Entering directory `/p200/chenhua_group/AISHA/Software/smartie-sv-master/src/blasr' make[1]: *** No targets specified and no makefile found. Stop. make[1]:...
I have installed its dependencies and checked for Hdf5lib but it is still unable to build, (base) baicai@18:08:35 /home/data1/baicai/AWAIS$ cd smartie-sv-master && make cd src/blasr && make && cp alignment/bin/blasr...
SV type
After I run smartie-sv, I can only get insertion and deletion. Can I get inversion and translocation using this software?
The following paths point to installations on a local system. HDF5INCLUDEDIR=/net/eichler/vol5/home/mchaisso/software/hdf/include/ HDF5LIBDIR=/net/eichler/vol5/home/mchaisso/software/hdf/lib They can be found in the file src/blasr/common.mk
Hi Zev, I'm trying to call SV between two assemblies of two different species with the tool. Here I just would like to confirm the query input of the software....
Hi, I just want to report an issue which might be a bug. When I tried "make" in the fold, it gave me the following error message: ` ../common/datastructures/alignmentset/SAMAlignment.h:221:33: error:...
I installed the blaser(V5.3.3) software using conda . when "snakemake -s Snakefile -w 50 -p -k -j 10" using the sample data; ERROR, can not convert non-pacbio reads to pbbam...
The Snakefile is now located in pipeline/ so the README instructions are out of date.
