diff --git a/setup.cfg b/setup.cfg index 5ab250f58e558274234932761e131074cb2c725c..67935c070fe47191d6fe10ae84f6069ceac0fa53 100644 --- a/setup.cfg +++ b/setup.cfg @@ -1,6 +1,6 @@ [metadata] name = phageTermVirome -version = 2.0 +version = 2.1 author = Marc Monot author_email = marc.monot@pasteur.fr description = Using sequencing bias to identify phages terminii and phage genome packaging. @@ -19,7 +19,13 @@ platforms=any [options] package_dir = = . -packages = find: + = _modules + = test-data + +[options.entry_points] +console_script = + PhageTermVirome = ptv.PhageTerm:main + python_requires = >=3.6 [options.packages.find] @@ -52,18 +58,40 @@ install_requires = statsmodels tk -[options.package_data]= - test-data=test-data/COS-3.500.fastq,test-data/COS-3.fasta,test-data/COS-3.fastq,test-data/COS-5.fasta - test-data/COS-5.fastq,test-data/DTR-long.fasta,test-data/DTR-long.fastq,test-data/DTR-short.fasta - test-data/DTR-short.fastq,test-data/Headful.fasta,test-data/Headful.fastq,test-data/Mu-like.fasta - test-data/Mu-like_R1.fastq,test-data/Mu-like_R2.fastq,test-data/Virome.fasta - test-data/Virome.fastq,test-data/chk_0_2_10_0.npz - data-virome=data-virome/Contigs_30min.fasta,data-virome/SRR4295172_2_div6.fastq,data-virome/SRR4295172_1_div6.fastq - unit-tests-data=unit-tests/data/G-janv_S2_R1_001.fastq.500,unit-tests/data/G-janv_S2_R2_001.fastq.500 - unit-tests/data/chk_0_0_38_863.npz,unit-tests/data/coverage0_0.npz,unit-tests/data/seq1_2_3.fasta - non-regression-tests-data=non-regression-tests/data/HK97_assembly.fasta,non-regression-tests/data/Lambda_assembly.fasta - non-regression-tests/data/P1_assembly.fasta,non-regression-tests/data/R1_1M_READS_EACH_PHAGE(1).fastq.4 - non-regression-tests/data/R1_1M_READS_EACH_PHAGE.fastq.20,non-regression-tests/data/R2_1M_READS_EACH_PHAGE(1).fastq.4 - non-regression-tests/data/R2_1M_READS_EACH_PHAGE.fastq.20,non-regression-tests/data/Staph1N_assembly.fasta - non-regression-tests/data/T4_assembly.fasta,non-regression-tests/data/T7_assembly.fasta - non-regression-tests/data/virome_6seq.fa +[options.data_files]= + test_data = test-data/COS-3.500.fastq + test-data/COS-3.fasta + test-data/COS-3.fastq + test-data/COS-5.fasta + test-data/COS-5.fastq + test-data/DTR-long.fasta + test-data/DTR-long.fastq + test-data/DTR-short.fasta + test-data/DTR-short.fastq + test-data/Headful.fasta + test-data/Headful.fastq + test-data/Mu-like.fasta + test-data/Mu-like_R1.fastq + test-data/Mu-like_R2.fastq + test-data/Virome.fasta + test-data/Virome.fastq + test-data/chk_0_2_10_0.npz +# data-virome=data-virome/Contigs_30min.fasta +# data-virome/SRR4295172_2_div6.fastq +# data-virome/SRR4295172_1_div6.fastq +# unit-tests-data=unit-tests/data/G-janv_S2_R1_001.fastq.500 +# unit-tests/data/G-janv_S2_R2_001.fastq.500 +# unit-tests/data/chk_0_0_38_863.npz +# unit-tests/data/coverage0_0.npz +# unit-tests/data/seq1_2_3.fasta +# non-regression-tests-data=non-regression-tests/data/HK97_assembly.fasta +# non-regression-tests/data/Lambda_assembly.fasta +# non-regression-tests/data/P1_assembly.fasta +# non-regression-tests/data/R1_1M_READS_EACH_PHAGE(1).fastq.4 +# non-regression-tests/data/R1_1M_READS_EACH_PHAGE.fastq.20 +# non-regression-tests/data/R2_1M_READS_EACH_PHAGE(1).fastq.4 +# non-regression-tests/data/R2_1M_READS_EACH_PHAGE.fastq.20 +# non-regression-tests/data/Staph1N_assembly.fasta +# non-regression-tests/data/T4_assembly.fasta +# non-regression-tests/data/T7_assembly.fasta +# non-regression-tests/data/virome_6seq.fa