Comments (2)
I would highly recommend using the SeqAn provided with the source code as a sub-repository. You can do that by cloning the SLIMM git repository recursively as follows:
git clone --recursive [email protected]:seqan/slimm.git
then:
mkdir slimm-build
cd slimm-build
cmake -DCMAKE_CXX_FLAGS="-std=c++14" -DCMAKE_BUILD_TYPE=Release ../slimm
make
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Okay. I might try that. Thanks for the suggestion and the prompt feedback! In the end I used the RPM package and installed SLIMM locally (to my user) with the help of rpm2cpio
. I'm using it in a shared cluster in which I don't have sudo permission.
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Related Issues (15)
- Problem with bowtie2 example HOT 3
- Simulation tests failed! HOT 10
- Can SLIMM provide report on sub species? HOT 2
- Custom Database Questions HOT 2
- build from source locally HOT 1
- empty taxonomic profiles HOT 3
- Segmentation fault during assigning reads to LCA HOT 8
- [feature/question] get coverage profiles HOT 13
- various questions HOT 2
- --directory option causes a segmentation fault and produce bad profiles HOT 3
- Accessions not mapped to taxaid HOT 1
- can't download viral bowtie2 index HOT 2
- Explanation of species-level classifcation filed "s_unknown_species" HOT 6
- Question: How does slimm deal with discordant mapping of paired end reads?
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