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VEBER Philippe
codepi
Commits
2ffd594b
Commit
2ffd594b
authored
Jul 18, 2018
by
Carine Rey
Browse files
update makefile
parent
3aea5571
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Makefile
Makefile
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Makefile
View file @
2ffd594b
...
...
@@ -28,7 +28,7 @@ push_docker:
done
# -----------------------------------------------------------------------
# Tests
and experiments
# Tests
# -----------------------------------------------------------------------
.PHONY
:
test_simu
test_simu
:
...
...
@@ -51,24 +51,55 @@ test_val:
mv
dag.dot dagtest_val.dot
&&
\
dot
-Tsvg
dagtest_val.dot
-o
dagtest_val.svg
# -----------------------------------------------------------------------
# experiments on real data (only Besnard)
# -----------------------------------------------------------------------
.PHONY
:
fast_real
fast_real
:
cd
example
&&
\
reviewphiltrans detection
--outdir
outdir_real_data
--indir
real_data
--fast
--np
4
&&
\
mv
dag.dot dagtest_real.dot
&&
\
dot
-Tpdf
dagtest_real.dot
-o
dagtest_real.pdf
.PHONY
:
real
real
:
cd
example
&&
\
reviewphiltrans detection
--outdir
outdir_real_data
--indir
real_data
--preview
--np
4
&&
\
reviewphiltrans detection
--outdir
outdir_real_data
--indir
real_data
--np
4
&&
\
mv
dag.dot dagtest_real.dot
&&
\
dot
-Tpdf
dagtest_real.dot
-o
dagtest_real.pdf
.PHONY
:
analyses_30Bloom
analyses_30Bloom
:
# -----------------------------------------------------------------------
# experiments on threshold choices
# -----------------------------------------------------------------------
.PHONY
:
analyses_30Bloom_t
analyses_30Bloom_t
:
cd
example
&&
\
reviewphiltrans validation
--outdir
outdir_analyses_tiragesBloomK30_t
--tree-dir
trees4analyses
--profile-fn
aa_fitness/tiragesBloomK30.tsv
--np
4
--no-ne
--no-hapc
--ns
500
&&
\
mv
dag.dot daganalyses_tiragesBloomK30_t.dot
.PHONY
:
analyses_263Bloom_t
analyses_263Bloom_t
:
cd
example
&&
\
reviewphiltrans validation
--outdir
outdir_analyses_263SelectedProfiles_t
--tree-dir
trees4analyses
--profile-fn
aa_fitness/263SelectedProfiles.tsv
--np
4
--no-ne
--no-hapc
--ns
500
&&
\
mv
dag.dot daganalyses_263SelectedProfiles_t.dot
# -----------------------------------------------------------------------
# experiments on Ne values choices
# -----------------------------------------------------------------------
.PHONY
:
analyses_30Bloom_ne
analyses_30Bloom_ne
:
cd
example
&&
\
reviewphiltrans validation
--outdir
outdir_analyses_tiragesBloomK30
--tree-dir
trees4analyses
--profile-fn
aa_fitness/tiragesBloomK30.tsv
--np
4
&&
\
mv
dag.dot daganalyses_tiragesBloomK30.dot
reviewphiltrans validation
--outdir
outdir_analyses_tiragesBloomK30
_ne
--tree-dir
trees4analyses
--profile-fn
aa_fitness/tiragesBloomK30.tsv
--np
4
--fast
--ns
500
&&
\
mv
dag.dot daganalyses_tiragesBloomK30
_ne
.dot
.PHONY
:
analyses_263Bloom
analyses_263Bloom
:
.PHONY
:
analyses_263Bloom
_ne
analyses_263Bloom
_ne
:
cd
example
&&
\
reviewphiltrans validation
--outdir
outdir_analyses_263SelectedProfiles
--tree-dir
trees4analyses
--profile-fn
aa_fitness/263SelectedProfiles.tsv
--np
4
&&
\
mv
dag.dot daganalyses_263SelectedProfiles.dot
reviewphiltrans validation
--outdir
outdir_analyses_263SelectedProfiles
_ne
--tree-dir
trees4analyses
--profile-fn
aa_fitness/263SelectedProfiles.tsv
--np
4
--fast
--ns
500
&&
\
mv
dag.dot daganalyses_263SelectedProfiles
_ne
.dot
# -----------------------------------------------------------------------
# Cleaning and formatting
...
...
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