moved templates to a dedicated data directory

mfiers · Oct 23, 2012 · 9e8cfd1 · 9e8cfd1
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diff --git a/moa/template/local_templates/abyss_pe.jinja2 → moa/data/templates/abyss_pe.jinja2 b/moa/template/local_templates/abyss_pe.jinja2 → moa/data/templates/abyss_pe.jinja2
diff --git a/moa/template/local_templates/abyss_pe.moa → moa/data/templates/abyss_pe.moa b/moa/template/local_templates/abyss_pe.moa → moa/data/templates/abyss_pe.moa
diff --git a/moa/template/local_templates/abyss_se.jinja2 → moa/data/templates/abyss_se.jinja2 b/moa/template/local_templates/abyss_se.jinja2 → moa/data/templates/abyss_se.jinja2
diff --git a/moa/template/local_templates/abyss_se.moa → moa/data/templates/abyss_se.moa b/moa/template/local_templates/abyss_se.moa → moa/data/templates/abyss_se.moa
diff --git a/moa/template/local_templates/archroot.jinja2 → moa/data/templates/archroot.jinja2 b/moa/template/local_templates/archroot.jinja2 → moa/data/templates/archroot.jinja2
diff --git a/moa/template/local_templates/archroot.moa → moa/data/templates/archroot.moa b/moa/template/local_templates/archroot.moa → moa/data/templates/archroot.moa
diff --git a/...mplate/local_templates/autohagfish.jinja2 → moa/data/templates/autohagfish.jinja2 b/...mplate/local_templates/autohagfish.jinja2 → moa/data/templates/autohagfish.jinja2
diff --git a/moa/template/local_templates/autohagfish.moa → moa/data/templates/autohagfish.moa b/moa/template/local_templates/autohagfish.moa → moa/data/templates/autohagfish.moa
diff --git a/...emplate/local_templates/bamextract.jinja2 → moa/data/templates/bamextract.jinja2 b/...emplate/local_templates/bamextract.jinja2 → moa/data/templates/bamextract.jinja2
diff --git a/moa/template/local_templates/bamextract.moa → moa/data/templates/bamextract.moa b/moa/template/local_templates/bamextract.moa → moa/data/templates/bamextract.moa
diff --git a/moa/template/local_templates/bdbb.jinja2 → moa/data/templates/bdbb.jinja2 b/moa/template/local_templates/bdbb.jinja2 → moa/data/templates/bdbb.jinja2
diff --git a/moa/template/local_templates/bdbb.moa → moa/data/templates/bdbb.moa b/moa/template/local_templates/bdbb.moa → moa/data/templates/bdbb.moa
diff --git a/...template/local_templates/bfast_aln.jinja2 → moa/data/templates/bfast_aln.jinja2 b/...template/local_templates/bfast_aln.jinja2 → moa/data/templates/bfast_aln.jinja2
diff --git a/moa/template/local_templates/bfast_aln.moa → moa/data/templates/bfast_aln.moa b/moa/template/local_templates/bfast_aln.moa → moa/data/templates/bfast_aln.moa
diff --git a/moa/template/local_templates/bfast_db.jinja2 → moa/data/templates/bfast_db.jinja2 b/moa/template/local_templates/bfast_db.jinja2 → moa/data/templates/bfast_db.jinja2
diff --git a/moa/template/local_templates/bfast_db.moa → moa/data/templates/bfast_db.moa b/moa/template/local_templates/bfast_db.moa → moa/data/templates/bfast_db.moa
diff --git a/moa/template/local_templates/blast.jinja2 → moa/data/templates/blast.jinja2 b/moa/template/local_templates/blast.jinja2 → moa/data/templates/blast.jinja2
diff --git a/moa/template/local_templates/blast.moa → moa/data/templates/blast.moa b/moa/template/local_templates/blast.moa → moa/data/templates/blast.moa
diff --git a/moa/template/local_templates/blastdb.jinja2 → moa/data/templates/blastdb.jinja2 b/moa/template/local_templates/blastdb.jinja2 → moa/data/templates/blastdb.jinja2
diff --git a/moa/template/local_templates/blastdb.moa → moa/data/templates/blastdb.moa b/moa/template/local_templates/blastdb.moa → moa/data/templates/blastdb.moa
diff --git a/moa/template/local_templates/bowtie.jinja2 → moa/data/templates/bowtie.jinja2 b/moa/template/local_templates/bowtie.jinja2 → moa/data/templates/bowtie.jinja2
diff --git a/moa/template/local_templates/bowtie.moa → moa/data/templates/bowtie.moa b/moa/template/local_templates/bowtie.moa → moa/data/templates/bowtie.moa
diff --git a/...e/local_templates/bowtie_pe.finish.jinja2 → moa/data/templates/bowtie_pe.finish.jinja2 b/...e/local_templates/bowtie_pe.finish.jinja2 → moa/data/templates/bowtie_pe.finish.jinja2
diff --git a/...template/local_templates/bowtie_pe.jinja2 → moa/data/templates/bowtie_pe.jinja2 b/...template/local_templates/bowtie_pe.jinja2 → moa/data/templates/bowtie_pe.jinja2
diff --git a/moa/template/local_templates/bowtie_pe.moa → moa/data/templates/bowtie_pe.moa b/moa/template/local_templates/bowtie_pe.moa → moa/data/templates/bowtie_pe.moa
diff --git a/...template/local_templates/bowtie_se.jinja2 → moa/data/templates/bowtie_se.jinja2 b/...template/local_templates/bowtie_se.jinja2 → moa/data/templates/bowtie_se.jinja2
diff --git a/moa/template/local_templates/bowtie_se.moa → moa/data/templates/bowtie_se.moa b/moa/template/local_templates/bowtie_se.moa → moa/data/templates/bowtie_se.moa
diff --git a/moa/template/local_templates/bowtiedb.jinja2 → moa/data/templates/bowtiedb.jinja2 b/moa/template/local_templates/bowtiedb.jinja2 → moa/data/templates/bowtiedb.jinja2
diff --git a/moa/template/local_templates/bowtiedb.moa → moa/data/templates/bowtiedb.moa b/moa/template/local_templates/bowtiedb.moa → moa/data/templates/bowtiedb.moa
diff --git a/moa/template/local_templates/bwa_aln.jinja2 → moa/data/templates/bwa_aln.jinja2 b/moa/template/local_templates/bwa_aln.jinja2 → moa/data/templates/bwa_aln.jinja2
diff --git a/moa/template/local_templates/bwa_aln.moa → moa/data/templates/bwa_aln.moa b/moa/template/local_templates/bwa_aln.moa → moa/data/templates/bwa_aln.moa
diff --git a/...template/local_templates/bwa_index.jinja2 → moa/data/templates/bwa_index.jinja2 b/...template/local_templates/bwa_index.jinja2 → moa/data/templates/bwa_index.jinja2
diff --git a/moa/template/local_templates/bwa_index.moa → moa/data/templates/bwa_index.moa b/moa/template/local_templates/bwa_index.moa → moa/data/templates/bwa_index.moa
diff --git a/...template/local_templates/bwa_sampe.jinja2 → moa/data/templates/bwa_sampe.jinja2 b/...template/local_templates/bwa_sampe.jinja2 → moa/data/templates/bwa_sampe.jinja2
diff --git a/moa/template/local_templates/bwa_sampe.moa → moa/data/templates/bwa_sampe.moa b/moa/template/local_templates/bwa_sampe.moa → moa/data/templates/bwa_sampe.moa
diff --git a/...template/local_templates/bwa_samse.jinja2 → moa/data/templates/bwa_samse.jinja2 b/...template/local_templates/bwa_samse.jinja2 → moa/data/templates/bwa_samse.jinja2
diff --git a/moa/template/local_templates/bwa_samse.moa → moa/data/templates/bwa_samse.moa b/moa/template/local_templates/bwa_samse.moa → moa/data/templates/bwa_samse.moa
diff --git a/...template/local_templates/cdsmatrix.jinja2 → moa/data/templates/cdsmatrix.jinja2 b/...template/local_templates/cdsmatrix.jinja2 → moa/data/templates/cdsmatrix.jinja2
diff --git a/moa/template/local_templates/cdsmatrix.moa → moa/data/templates/cdsmatrix.moa b/moa/template/local_templates/cdsmatrix.moa → moa/data/templates/cdsmatrix.moa
diff --git a/moa/template/local_templates/empty.jinja2 → moa/data/templates/empty.jinja2 b/moa/template/local_templates/empty.jinja2 → moa/data/templates/empty.jinja2
diff --git a/moa/template/local_templates/empty.moa → moa/data/templates/empty.moa b/moa/template/local_templates/empty.moa → moa/data/templates/empty.moa
diff --git a/...plate/local_templates/fastainfo.finish.py → moa/data/templates/fastainfo.finish.py b/...plate/local_templates/fastainfo.finish.py → moa/data/templates/fastainfo.finish.py
diff --git a/moa/template/local_templates/fastainfo.moa → moa/data/templates/fastainfo.moa b/moa/template/local_templates/fastainfo.moa → moa/data/templates/fastainfo.moa
diff --git a/...template/local_templates/fastainfo.run.py → moa/data/templates/fastainfo.run.py b/...template/local_templates/fastainfo.run.py → moa/data/templates/fastainfo.run.py
diff --git a/moa/template/local_templates/fastqc.jinja2 → moa/data/templates/fastqc.jinja2 b/moa/template/local_templates/fastqc.jinja2 → moa/data/templates/fastqc.jinja2
diff --git a/moa/template/local_templates/fastqc.moa → moa/data/templates/fastqc.moa b/moa/template/local_templates/fastqc.moa → moa/data/templates/fastqc.moa
diff --git a/...late/local_templates/fastx_clipper.jinja2 → moa/data/templates/fastx_clipper.jinja2 b/...late/local_templates/fastx_clipper.jinja2 → moa/data/templates/fastx_clipper.jinja2
diff --git a/...emplate/local_templates/fastx_clipper.moa → moa/data/templates/fastx_clipper.moa b/...emplate/local_templates/fastx_clipper.moa → moa/data/templates/fastx_clipper.moa
diff --git a/...e/local_templates/fastx_qual_stats.jinja2 → moa/data/templates/fastx_qual_stats.jinja2 b/...e/local_templates/fastx_qual_stats.jinja2 → moa/data/templates/fastx_qual_stats.jinja2
diff --git a/...late/local_templates/fastx_qual_stats.moa → moa/data/templates/fastx_qual_stats.moa b/...late/local_templates/fastx_qual_stats.moa → moa/data/templates/fastx_qual_stats.moa
diff --git a/...ate/local_templates/filterwgs_pair.jinja2 → moa/data/templates/filterwgs_pair.jinja2 b/...ate/local_templates/filterwgs_pair.jinja2 → moa/data/templates/filterwgs_pair.jinja2
diff --git a/...mplate/local_templates/filterwgs_pair.moa → moa/data/templates/filterwgs_pair.moa b/...mplate/local_templates/filterwgs_pair.moa → moa/data/templates/filterwgs_pair.moa
diff --git a/...template/local_templates/genemarks.jinja2 → moa/data/templates/genemarks.jinja2 b/...template/local_templates/genemarks.jinja2 → moa/data/templates/genemarks.jinja2
diff --git a/moa/template/local_templates/genemarks.moa → moa/data/templates/genemarks.moa b/moa/template/local_templates/genemarks.moa → moa/data/templates/genemarks.moa
diff --git a/moa/template/local_templates/glimmer3.jinja2 → moa/data/templates/glimmer3.jinja2 b/moa/template/local_templates/glimmer3.jinja2 → moa/data/templates/glimmer3.jinja2
diff --git a/moa/template/local_templates/glimmer3.moa → moa/data/templates/glimmer3.moa b/moa/template/local_templates/glimmer3.moa → moa/data/templates/glimmer3.moa
diff --git a/moa/template/local_templates/gmap.jinja2 → moa/data/templates/gmap.jinja2 b/moa/template/local_templates/gmap.jinja2 → moa/data/templates/gmap.jinja2
diff --git a/moa/template/local_templates/gmap.moa → moa/data/templates/gmap.moa b/moa/template/local_templates/gmap.moa → moa/data/templates/gmap.moa
diff --git a/moa/template/local_templates/gmapdb.jinja2 → moa/data/templates/gmapdb.jinja2 b/moa/template/local_templates/gmapdb.jinja2 → moa/data/templates/gmapdb.jinja2
diff --git a/moa/template/local_templates/gmapdb.moa → moa/data/templates/gmapdb.moa b/moa/template/local_templates/gmapdb.moa → moa/data/templates/gmapdb.moa
diff --git a/moa/template/local_templates/gsMapper.jinja2 → moa/data/templates/gsMapper.jinja2 b/moa/template/local_templates/gsMapper.jinja2 → moa/data/templates/gsMapper.jinja2
diff --git a/moa/template/local_templates/hagfish.jinja2 → moa/data/templates/hagfish.jinja2 b/moa/template/local_templates/hagfish.jinja2 → moa/data/templates/hagfish.jinja2
diff --git a/moa/template/local_templates/hagfish.moa → moa/data/templates/hagfish.moa b/moa/template/local_templates/hagfish.moa → moa/data/templates/hagfish.moa
diff --git a/moa/template/local_templates/kanga.jinja2 → moa/data/templates/kanga.jinja2 b/moa/template/local_templates/kanga.jinja2 → moa/data/templates/kanga.jinja2
diff --git a/moa/template/local_templates/kanga.moa → moa/data/templates/kanga.moa b/moa/template/local_templates/kanga.moa → moa/data/templates/kanga.moa
diff --git a/...template/local_templates/kangar_pe.jinja2 → moa/data/templates/kangar_pe.jinja2 b/...template/local_templates/kangar_pe.jinja2 → moa/data/templates/kangar_pe.jinja2
diff --git a/moa/template/local_templates/kangar_pe.moa → moa/data/templates/kangar_pe.moa b/moa/template/local_templates/kangar_pe.moa → moa/data/templates/kangar_pe.moa
diff --git a/...template/local_templates/kangar_se.jinja2 → moa/data/templates/kangar_se.jinja2 b/...template/local_templates/kangar_se.jinja2 → moa/data/templates/kangar_se.jinja2
diff --git a/moa/template/local_templates/kangar_se.moa → moa/data/templates/kangar_se.moa b/moa/template/local_templates/kangar_se.moa → moa/data/templates/kangar_se.moa
diff --git a/moa/template/local_templates/kangax.jinja2 → moa/data/templates/kangax.jinja2 b/moa/template/local_templates/kangax.jinja2 → moa/data/templates/kangax.jinja2
diff --git a/moa/template/local_templates/kangax.moa → moa/data/templates/kangax.moa b/moa/template/local_templates/kangax.moa → moa/data/templates/kangax.moa
diff --git a/moa/template/local_templates/map.jinja2 → moa/data/templates/map.jinja2 b/moa/template/local_templates/map.jinja2 → moa/data/templates/map.jinja2
diff --git a/moa/template/local_templates/map.moa → moa/data/templates/map.moa b/moa/template/local_templates/map.moa → moa/data/templates/map.moa
diff --git a/moa/template/local_templates/map2.jinja2 → moa/data/templates/map2.jinja2 b/moa/template/local_templates/map2.jinja2 → moa/data/templates/map2.jinja2
diff --git a/moa/template/local_templates/map2.moa → moa/data/templates/map2.moa b/moa/template/local_templates/map2.moa → moa/data/templates/map2.moa
diff --git a/moa/template/local_templates/map22.jinja2 → moa/data/templates/map22.jinja2 b/moa/template/local_templates/map22.jinja2 → moa/data/templates/map22.jinja2
diff --git a/moa/template/local_templates/map22.moa → moa/data/templates/map22.moa b/moa/template/local_templates/map22.moa → moa/data/templates/map22.moa
diff --git a/moa/template/local_templates/maq_pe.jinja2 → moa/data/templates/maq_pe.jinja2 b/moa/template/local_templates/maq_pe.jinja2 → moa/data/templates/maq_pe.jinja2
diff --git a/moa/template/local_templates/maq_pe.moa → moa/data/templates/maq_pe.moa b/moa/template/local_templates/maq_pe.moa → moa/data/templates/maq_pe.moa
diff --git a/moa/template/local_templates/maq_se.jinja2 → moa/data/templates/maq_se.jinja2 b/moa/template/local_templates/maq_se.jinja2 → moa/data/templates/maq_se.jinja2
diff --git a/moa/template/local_templates/maq_se.moa → moa/data/templates/maq_se.moa b/moa/template/local_templates/maq_se.moa → moa/data/templates/maq_se.moa
diff --git a/moa/template/local_templates/mummer.jinja2 → moa/data/templates/mummer.jinja2 b/moa/template/local_templates/mummer.jinja2 → moa/data/templates/mummer.jinja2
diff --git a/moa/template/local_templates/mummer.moa → moa/data/templates/mummer.moa b/moa/template/local_templates/mummer.moa → moa/data/templates/mummer.moa
diff --git a/moa/template/local_templates/ncbi.jinja2 → moa/data/templates/ncbi.jinja2 b/moa/template/local_templates/ncbi.jinja2 → moa/data/templates/ncbi.jinja2
diff --git a/moa/template/local_templates/ncbi.moa → moa/data/templates/ncbi.moa b/moa/template/local_templates/ncbi.moa → moa/data/templates/ncbi.moa
diff --git a/moa/template/local_templates/orthomcl.jinja2 → moa/data/templates/orthomcl.jinja2 b/moa/template/local_templates/orthomcl.jinja2 → moa/data/templates/orthomcl.jinja2
diff --git a/moa/template/local_templates/orthomcl.moa → moa/data/templates/orthomcl.moa b/moa/template/local_templates/orthomcl.moa → moa/data/templates/orthomcl.moa
diff --git a/...mplate/local_templates/orthomcl.tables.py → moa/data/templates/orthomcl.tables.py b/...mplate/local_templates/orthomcl.tables.py → moa/data/templates/orthomcl.tables.py
diff --git a/moa/template/local_templates/project.jinja2 → moa/data/templates/project.jinja2 b/moa/template/local_templates/project.jinja2 → moa/data/templates/project.jinja2
diff --git a/moa/template/local_templates/project.moa → moa/data/templates/project.moa b/moa/template/local_templates/project.moa → moa/data/templates/project.moa
diff --git a/...late/local_templates/recursive_map.jinja2 → moa/data/templates/recursive_map.jinja2 b/...late/local_templates/recursive_map.jinja2 → moa/data/templates/recursive_map.jinja2
diff --git a/...emplate/local_templates/recursive_map.moa → moa/data/templates/recursive_map.moa b/...emplate/local_templates/recursive_map.moa → moa/data/templates/recursive_map.moa
diff --git a/moa/template/local_templates/reduce.jinja2 → moa/data/templates/reduce.jinja2 b/moa/template/local_templates/reduce.jinja2 → moa/data/templates/reduce.jinja2
diff --git a/moa/template/local_templates/reduce.moa → moa/data/templates/reduce.moa b/moa/template/local_templates/reduce.moa → moa/data/templates/reduce.moa
diff --git a/...te/local_templates/samtools_pileup.jinja2 → moa/data/templates/samtools_pileup.jinja2 b/...te/local_templates/samtools_pileup.jinja2 → moa/data/templates/samtools_pileup.jinja2
diff --git a/...plate/local_templates/samtools_pileup.moa → moa/data/templates/samtools_pileup.moa b/...plate/local_templates/samtools_pileup.moa → moa/data/templates/samtools_pileup.moa
diff --git a/moa/template/local_templates/simple.jinja2 → moa/data/templates/simple.jinja2 b/moa/template/local_templates/simple.jinja2 → moa/data/templates/simple.jinja2
diff --git a/moa/template/local_templates/simple.moa → moa/data/templates/simple.moa b/moa/template/local_templates/simple.moa → moa/data/templates/simple.moa
diff --git a/moa/template/local_templates/smalt_pe.jinja2 → moa/data/templates/smalt_pe.jinja2 b/moa/template/local_templates/smalt_pe.jinja2 → moa/data/templates/smalt_pe.jinja2
diff --git a/moa/template/local_templates/smalt_pe.moa → moa/data/templates/smalt_pe.moa b/moa/template/local_templates/smalt_pe.moa → moa/data/templates/smalt_pe.moa
diff --git a/moa/template/local_templates/smaltdb.jinja2 → moa/data/templates/smaltdb.jinja2 b/moa/template/local_templates/smaltdb.jinja2 → moa/data/templates/smaltdb.jinja2
diff --git a/moa/template/local_templates/smaltdb.moa → moa/data/templates/smaltdb.moa b/moa/template/local_templates/smaltdb.moa → moa/data/templates/smaltdb.moa
diff --git a/...late/local_templates/soapdenovo_pe.jinja2 → moa/data/templates/soapdenovo_pe.jinja2 b/...late/local_templates/soapdenovo_pe.jinja2 → moa/data/templates/soapdenovo_pe.jinja2
diff --git a/...emplate/local_templates/soapdenovo_pe.moa → moa/data/templates/soapdenovo_pe.moa b/...emplate/local_templates/soapdenovo_pe.moa → moa/data/templates/soapdenovo_pe.moa
diff --git a/...l_templates/soapdenovo_postprocess.jinja2 → ...a/templates/soapdenovo_postprocess.jinja2 b/...l_templates/soapdenovo_postprocess.jinja2 → ...a/templates/soapdenovo_postprocess.jinja2
diff --git a/...ocal_templates/soapdenovo_postprocess.moa → ...data/templates/soapdenovo_postprocess.moa b/...ocal_templates/soapdenovo_postprocess.moa → ...data/templates/soapdenovo_postprocess.moa
diff --git a/moa/template/local_templates/statsidx.jinja2 → moa/data/templates/statsidx.jinja2 b/moa/template/local_templates/statsidx.jinja2 → moa/data/templates/statsidx.jinja2
diff --git a/moa/template/local_templates/statsidx.moa → moa/data/templates/statsidx.moa b/moa/template/local_templates/statsidx.moa → moa/data/templates/statsidx.moa
diff --git a/moa/template/local_templates/sync.jinja2 → moa/data/templates/sync.jinja2 b/moa/template/local_templates/sync.jinja2 → moa/data/templates/sync.jinja2
diff --git a/moa/template/local_templates/sync.moa → moa/data/templates/sync.moa b/moa/template/local_templates/sync.moa → moa/data/templates/sync.moa
diff --git a/moa/template/local_templates/sync.run.py → moa/data/templates/sync.run.py b/moa/template/local_templates/sync.run.py → moa/data/templates/sync.run.py
diff --git a/moa/template/local_templates/unittest.jinja2 → moa/data/templates/unittest.jinja2 b/moa/template/local_templates/unittest.jinja2 → moa/data/templates/unittest.jinja2
diff --git a/moa/template/local_templates/unittest.moa → moa/data/templates/unittest.moa b/moa/template/local_templates/unittest.moa → moa/data/templates/unittest.moa
diff --git a/moa/template/local_templates/wget.jinja2 → moa/data/templates/wget.jinja2 b/moa/template/local_templates/wget.jinja2 → moa/data/templates/wget.jinja2
diff --git a/moa/template/local_templates/wget.moa → moa/data/templates/wget.moa b/moa/template/local_templates/wget.moa → moa/data/templates/wget.moa