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VEBER Philippe
codepi
Commits
e5695953
Commit
e5695953
authored
Nov 08, 2019
by
Carine Rey
Browse files
add pcoc_v2 (V1 implementation with C10/C60 + manual profils with V1 implementation)
parent
02b0d86b
Changes
15
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15 changed files
with
144 additions
and
13 deletions
+144
-13
Makefile
Makefile
+5
-2
app/reviewphiltrans_app.ml
app/reviewphiltrans_app.ml
+15
-0
lib/convergence_detection.ml
lib/convergence_detection.ml
+5
-3
lib/convergence_detection.mli
lib/convergence_detection.mli
+2
-0
lib/detection_pipeline.ml
lib/detection_pipeline.ml
+7
-1
lib/env.ml
lib/env.ml
+4
-0
lib/identical.ml
lib/identical.ml
+1
-1
lib/pcoc.ml
lib/pcoc.ml
+30
-1
lib/pcoc.mli
lib/pcoc.mli
+15
-2
lib/post_analyses.ml
lib/post_analyses.ml
+1
-1
lib/real_dataset.ml
lib/real_dataset.ml
+8
-0
lib/real_dataset.mli
lib/real_dataset.mli
+2
-0
lib/scripts/merge_det_results.py
lib/scripts/merge_det_results.py
+27
-1
lib/scripts/physic_properties_profiles.tsv
lib/scripts/physic_properties_profiles.tsv
+21
-0
lib/topological.ml
lib/topological.ml
+1
-1
No files found.
Makefile
View file @
e5695953
...
...
@@ -46,8 +46,11 @@ test:
.PHONY
:
realdata_test
realdata_test
:
cd
example
&&
\
reviewphiltrans realdata
--outdir
outdir_realdata_test
--indir
real_data/online_rodent
--np
4
&&
\
reviewphiltrans realdata
--pcoc
--outdir
outdir_realdata_test
--indir
real_data/online_rodent
--np
4
../_build/install/default/bin/reviewphiltrans realdata
--outdir
outdir_realdata_test
--indir
real_data/online_rodent
--np
16
&&
\
../_build/install/default/bin/reviewphiltrans realdata
--pcoc-v2
--pcoc-pcp
--pcoc
--outdir
outdir_realdata_test
--indir
real_data/online_rodent
--np
16
&&
\
../_build/install/default/bin/reviewphiltrans realdata
--pcoc-v2
--pcoc-pcp
--pcoc
--gt
--outdir
outdir_realdata_test
--indir
real_data/online_rodent
--np
16
&&
\
../_build/install/default/bin/reviewphiltrans realdata
--pcoc-v2
--pcoc-pcp
--pcoc
--gt
--dnds
--outdir
outdir_realdata_test
--indir
real_data/online_rodent
--np
16
&&
\
../_build/install/default/bin/reviewphiltrans realdata
--pcoc-v2
--pcoc-pcp
--pcoc
--tdg09
--gt
--dnds
--outdir
outdir_realdata_test
--indir
real_data/online_rodent
--np
16
# -----------------------------------------------------------------------
# Realdata
...
...
app/reviewphiltrans_app.ml
View file @
e5695953
...
...
@@ -13,6 +13,9 @@ let realdata_main ~use_diffsel
~
use_pcoc
~
use_pcoc_c60
~
use_pcoc_gamma
~
use_pcoc_v2
~
use_pcoc_pcp
~
use_tdg09
~
use_topological
~
use_identical
~
no_use_multinomial
...
...
@@ -34,6 +37,9 @@ let realdata_main ~use_diffsel
sw
use_pcoc
`Pcoc
;
sw
use_pcoc_c60
`Pcoc_C60
;
sw
use_pcoc_gamma
`Pcoc_gamma
;
sw
use_pcoc_v2
`PCOC_v2
;
sw
use_pcoc_pcp
`PCOC_pcp
;
sw
use_tdg09
`Tdg09
;
sw
use_topological
`Topological
;
sw
use_identical
`Identical
;
sw
use_multinomial
`Multinomial
;
...
...
@@ -67,6 +73,12 @@ let realdata_command =
flag
"--pcoc-c60"
no_arg
~
doc
:
" use the pcoc method with c60 profils (very_slow)."
and
use_pcoc_gamma
=
flag
"--pcoc-gamma"
no_arg
~
doc
:
" use the pcoc method with the gamma option (very_slow)."
and
use_pcoc_v2
=
flag
"--pcoc-v2"
no_arg
~
doc
:
" use the pcoc v2 method with the C10 profiles (slow)."
and
use_pcoc_pcp
=
flag
"--pcoc-pcp"
no_arg
~
doc
:
" use the pcoc v2 method with the physico-chemical profiles (slow)."
and
use_tdg09
=
flag
"--tdg09"
no_arg
~
doc
:
" use the tdg09 method (slow)."
and
use_topological
=
flag
"--topological"
no_arg
~
doc
:
" use the topological method (fast)."
and
use_identical
=
...
...
@@ -86,6 +98,9 @@ let realdata_command =
~
use_pcoc
~
use_pcoc_c60
~
use_pcoc_gamma
~
use_pcoc_v2
~
use_pcoc_pcp
~
use_tdg09
~
use_topological
~
use_identical
~
no_use_multinomial
...
...
lib/convergence_detection.ml
View file @
e5695953
...
...
@@ -78,7 +78,7 @@ let merge_results ?fna_infos ~(res_by_tools : result list) () : text_file pworkf
]
;
]
let
merge_result_tables
?
fna_infos
?
oracle
?
multinomial
?
tdg09
?
identical
?
topological
?
pcoc
?
diffsel
?
diffseldsparse
()
:
text_file
pworkflow
=
let
merge_result_tables
?
fna_infos
?
oracle
?
multinomial
?
tdg09
?
identical
?
topological
?
pcoc
?
pcoc_v2
?
pcoc_pcp
?
diffsel
?
diffseldsparse
()
:
text_file
pworkflow
=
Workflow
.
shell
~
descr
:
"convergence_detection.merge_results"
[
cmd
"python"
~
img
:
Env
.
env_py
[
file_dump
(
string
Scripts
.
merge_det_results
)
;
...
...
@@ -87,6 +87,8 @@ let merge_result_tables ?fna_infos ?oracle ?multinomial ?tdg09 ?identical ?topol
option
(
opt
"--tdg09"
dep
)
tdg09
;
option
(
opt
"--identical_LG"
dep
)
identical
;
option
(
opt
"--topological_LG"
dep
)
topological
;
option
(
opt
"--pcoc_v2"
dep
)
pcoc_v2
;
option
(
opt
"--pcoc_pcp"
dep
)
pcoc_pcp
;
option
(
opt
"--pcoc"
dep
)
pcoc
;
option
(
opt
"--diffsel"
dep
)
diffsel
;
option
(
opt
"--diffseldsparse"
dep
)
diffseldsparse
;
...
...
@@ -96,7 +98,7 @@ let merge_result_tables ?fna_infos ?oracle ?multinomial ?tdg09 ?identical ?topol
]
let
plot_merge_results
?
t_choices
~
plot_all_sites
~
(
res_by_tools
:
result
list
)
~
tree
~
faa
~
tsv
()
:
svg
pworkflow
=
let
img
=
Pcoc
.
img
in
let
img
=
Env
.
env_pcoc
in
(* use of pcoc env due to its working X server for dra plot with ete3 *)
let
meths
=
List
.
map
res_by_tools
~
f
:
(
fun
res
->
let
opt
=
match
res
with
...
...
@@ -163,7 +165,7 @@ let plot_merge_results ?t_choices ~plot_all_sites ~(res_by_tools:result list) ~t
let
plot_convergent_sites
?
(
plot_all_sites
=
true
)
~
alignment
~
detection_results
~
tree
()
=
Workflow
.
shell
~
descr
:
"plot_convergent_sites.py"
[
within_container
Pcoc
.
img
(
within_container
Env
.
env_pcoc
(
and_list
[
mkdir_p
dest
;
cmd
"python"
[
...
...
lib/convergence_detection.mli
View file @
e5695953
...
...
@@ -40,6 +40,8 @@ val merge_result_tables :
?
identical
:
text_file
pworkflow
->
?
topological
:
text_file
pworkflow
->
?
pcoc
:
text_file
pworkflow
->
?
pcoc_v2
:
text_file
pworkflow
->
?
pcoc_pcp
:
text_file
pworkflow
->
?
diffsel
:
text_file
pworkflow
->
?
diffseldsparse
:
text_file
pworkflow
->
unit
->
...
...
lib/detection_pipeline.ml
View file @
e5695953
...
...
@@ -88,11 +88,17 @@ module Make(D : Dataset) = struct
|>
Diffseldsparse
.
readdiffseldsparse
|>
Diffseldsparse
.
results
let
pcoc
?
(
gamma
=
true
)
?
(
ncat
=
6
0
)
d
=
let
pcoc
?
(
gamma
=
true
)
?
(
ncat
=
1
0
)
d
=
let
faa
=
amino_acid_alignment
d
in
let
tree
=
tree
d
in
Pcoc
.
pcoc
~
catx_est
:
ncat
~
plot_complete
:
false
~
gamma
~
faa
~
tree
()
|>
Pcoc
.
results
let
pcoc_v2
?
(
gamma
=
true
)
?
(
aa_profiles
=
`C10
)
d
=
let
faa
=
amino_acid_alignment
d
in
let
tree
=
tree
d
in
Pcoc
.
pcoc_v2
~
aa_profiles
~
gamma
~
faa
~
tree
()
|>
Pcoc
.
results
let
dn_ds_dnds_trees
d
=
Testnh
.
dn_ds_trees_real_data
~
fna
:
(
nucleotide_alignment
d
)
~
tree
:
(
tree
d
)
()
...
...
lib/env.ml
View file @
e5695953
...
...
@@ -15,3 +15,7 @@ let env_msd = [ docker_image ~account:"carinerey" ~name:"msd" ~tag:"31082018" ()
let
env_diffsel
=
[
docker_image
~
account
:
"vlanore"
~
name
:
"diffsel"
~
tag
:
"master_a4b5"
()
]
let
env_raxml_ng
=
[
docker_image
~
account
:
"nanozoo"
~
name
:
"raxml-ng"
~
tag
:
"0.9.0--435348d"
()
]
let
env_pcoc
=
[
docker_image
~
account
:
"carinerey"
~
name
:
"pcoc"
~
tag
:
"08312018"
()
]
let
env_pcoc_v2
=
[
docker_image
~
account
:
"carinerey"
~
name
:
"pcoc"
~
tag
:
"v1.1.0.beta"
()
]
lib/identical.ml
View file @
e5695953
...
...
@@ -99,7 +99,7 @@ let identical ?(descr="") ~(tree_id:_ pworkflow) ~(tree_sc:_ pworkflow) ~(faa:am
let
proba
=
Workflow
.
select
run_bppancestor
[
"sites.tsv"
]
in
Workflow
.
shell
~
descr
:
(
"identical."
^
prot_model
^
"."
^
descr
)
[
mkdir
dest
;
cmd
"python"
~
img
:
Pcoc
.
img
[
cmd
"python"
~
img
:
Env
.
env_pcoc
[
file_dump
(
string
Scripts
.
calc_identical
)
;
opt
"-t"
dep
tree_sc
;
opt
"-a"
dep
faa
;
...
...
lib/pcoc.ml
View file @
e5695953
...
...
@@ -3,7 +3,7 @@ open Bistro
open
Bistro
.
Shell_dsl
open
File_formats
let
img
=
[
docker_image
~
account
:
"carinerey"
~
name
:
"pcoc"
~
tag
:
"08312018"
()
]
let
img
=
Env
.
env_pcoc
let
pcoc
?
(
descr
=
""
)
?
plot_complete
?
gamma
?
catx_est
?
max_gap_per_pos
?
max_gap_per_conv_leaf
~
(
faa
:
aminoacid_fasta
pworkflow
)
~
(
tree
:_
workflow
)
()
:
[
`pcoc
]
dworkflow
=
Workflow
.
shell
~
descr
:
(
"convergence_detection.pcoc."
^
descr
)
[
...
...
@@ -25,3 +25,32 @@ let results run_pcoc : text_file pworkflow =
Workflow
.
shell
~
descr
:
"convergence_detection.selector_pcoc"
[
cmd
"cp"
[
out_pcoc
;
ident
dest
]
;
]
let
img_v2
=
Env
.
env_pcoc_v2
type
aa_profiles
=
[
`C10
|
`C60
|
`Physic_properties
]
let
pcoc_v2
?
(
descr
=
""
)
?
gamma
~
(
aa_profiles
:
aa_profiles
)
~
(
faa
:
aminoacid_fasta
pworkflow
)
~
(
tree
:_
workflow
)
()
:
[
`pcoc
]
dworkflow
=
let
tmp_profiles
=
tmp
//
"Physic_properties_profiles.tsv"
in
let
est_profiles
=
match
aa_profiles
with
|
`C10
->
opt
"-est_profiles"
string
"C10"
|
`C60
->
opt
"-est_profiles"
string
"C60"
|
`Physic_properties
->
opt
"-est_profiles"
ident
tmp_profiles
in
Workflow
.
shell
~
descr
:
(
"convergence_detection.pcoc_v2."
^
descr
)
[
cmd
"cat"
~
stdout
:
tmp_profiles
[(
file_dump
(
string
Scripts
.
physic_properties_profiles
))];
cmd
"pcoc_det.py"
~
img
:
img_v2
[
opt
"-t"
dep
tree
;
opt
"-m"
string
"-"
;
opt
"-aa"
dep
faa
;
opt
"-o"
ident
dest
;
string
"--no_mixture --V1"
;
option
(
flag
string
"--gamma"
)
gamma
;
est_profiles
]
]
lib/pcoc.mli
View file @
e5695953
open
Bistro
open
File_formats
val
img
:
Shell_dsl
.
container_image
list
val
pcoc
:
?
descr
:
string
->
?
plot_complete
:
bool
->
...
...
@@ -18,3 +16,18 @@ val pcoc :
val
results
:
[
`pcoc
]
dworkflow
->
text_file
pworkflow
type
aa_profiles
=
[
`C10
|
`C60
|
`Physic_properties
]
val
pcoc_v2
:
?
descr
:
string
->
?
gamma
:
bool
->
aa_profiles
:
aa_profiles
->
faa
:
aminoacid_fasta
pworkflow
->
tree
:_
pworkflow
->
unit
->
[
`pcoc
]
dworkflow
lib/post_analyses.ml
View file @
e5695953
...
...
@@ -173,7 +173,7 @@ let make_t_choices ?(tree_prefix="") ~haPCOC_mr
]
let
make_simu_infos
?
(
descr
=
""
)
?
(
fna_infos
)
~
faa
~
tree_sc
:
text_file
pworkflow
=
let
img
=
Pcoc
.
img
in
let
img
=
Env
.
env_pcoc
in
Workflow
.
shell
~
descr
:
(
"post_analyses.simu_infos."
^
descr
)
[
cmd
"python"
~
img
[
file_dump
(
string
Scripts
.
calc_simu_infos
)
;
...
...
lib/real_dataset.ml
View file @
e5695953
...
...
@@ -12,6 +12,8 @@ type meth =
`Pcoc
|
`Pcoc_gamma
|
`Pcoc_C60
|
`PCOC_v2
|
`PCOC_pcp
|
`Tdg09
|
`Topological
|
`Identical
|
...
...
@@ -82,6 +84,10 @@ let implementation f = function
DP
.
pcoc
~
gamma
:
true
~
ncat
:
10
f
|
`Pcoc_C60
->
DP
.
pcoc
~
gamma
:
false
~
ncat
:
60
f
|
`PCOC_v2
->
DP
.
pcoc_v2
~
gamma
:
false
~
aa_profiles
:
`C10
f
|
`PCOC_pcp
->
DP
.
pcoc_v2
~
gamma
:
false
~
aa_profiles
:
`Physic_properties
f
|
`Tdg09
->
DP
.
tdg09
f
|
`Topological
->
...
...
@@ -110,6 +116,8 @@ let result_table meths rd =
?
multinomial
:
(
maybe_apply_method
meths
f
`Multinomial
)
?
tdg09
:
(
maybe_apply_method
meths
f
`Tdg09
)
?
pcoc
:
(
maybe_apply_method
meths
f
`Pcoc
)
?
pcoc_v2
:
(
maybe_apply_method
meths
f
`PCOC_v2
)
?
pcoc_pcp
:
(
maybe_apply_method
meths
f
`PCOC_pcp
)
?
topological
:
(
maybe_apply_method
meths
f
`Topological
)
?
identical
:
(
maybe_apply_method
meths
f
`Identical
)
?
diffsel
:
(
maybe_apply_method
meths
f
`Diffsel
)
...
...
lib/real_dataset.mli
View file @
e5695953
...
...
@@ -8,6 +8,8 @@ type meth =
`Pcoc
|
`Pcoc_gamma
|
`Pcoc_C60
|
`PCOC_v2
|
`PCOC_pcp
|
`Tdg09
|
`Topological
|
`Identical
|
...
...
lib/scripts/merge_det_results.py
View file @
e5695953
...
...
@@ -54,6 +54,10 @@ availableOptions.add_argument('--pcoc', type=str,
help
=
"Pcoc output name"
,
default
=
None
)
availableOptions
.
add_argument
(
'--pcoc_gamma'
,
type
=
str
,
help
=
"Pcoc_gamma output name"
,
default
=
None
)
availableOptions
.
add_argument
(
'--pcoc_v2'
,
type
=
str
,
help
=
"Pcoc_v2 output name"
,
default
=
None
)
availableOptions
.
add_argument
(
'--pcoc_pcp'
,
type
=
str
,
help
=
"Pcoc_pcp output name"
,
default
=
None
)
availableOptions
.
add_argument
(
'--pcoc_C60'
,
type
=
str
,
help
=
"Pcoc_C60 output name"
,
default
=
None
)
availableOptions
.
add_argument
(
'--diffsel'
,
type
=
str
,
...
...
@@ -89,6 +93,8 @@ args = parser.parse_args()
df_pcoc
=
pd
.
DataFrame
()
df_pcoc_gamma
=
pd
.
DataFrame
()
df_pcoc_v2
=
pd
.
DataFrame
()
df_pcoc_pcp
=
pd
.
DataFrame
()
df_pcoc_C60
=
pd
.
DataFrame
()
df_diffsel
=
pd
.
DataFrame
()
df_diffseldsparse
=
pd
.
DataFrame
()
...
...
@@ -116,6 +122,26 @@ if args.pcoc_gamma :
df_pcoc_gamma
.
rename
(
columns
=
{
'PCOC'
:
'PCOC_gamma'
,
'PC'
:
'PC_gamma'
,
'OC'
:
'OC_gamma'
},
inplace
=
True
)
if
args
.
pcoc_v2
:
df_pcoc_v2
=
pd
.
read_csv
(
args
.
pcoc_v2
,
sep
=
"
\t
"
)
col
=
[
'Sites'
,
'PCOC_V1'
,
'PC_V1'
,
'OC_V1'
]
if
not
args
.
pcoc
:
col
.
extend
([
"Indel_prop"
,
"Indel_prop(ConvLeaves)"
])
df_pcoc_v2
=
df_pcoc_v2
[
col
]
df_pcoc_v2
.
rename
(
columns
=
{
'PCOC_V1'
:
'PCOC_v2'
,
'PC_V1'
:
'PC_v2'
,
'OC_V1'
:
'OC_v2'
},
inplace
=
True
)
if
args
.
pcoc_pcp
:
df_pcoc_pcp
=
pd
.
read_csv
(
args
.
pcoc_pcp
,
sep
=
"
\t
"
)
col
=
[
'Sites'
,
'PCOC_V1'
,
'PC_V1'
,
'OC_V1'
]
if
not
args
.
pcoc
:
col
.
extend
([
"Indel_prop"
,
"Indel_prop(ConvLeaves)"
])
df_pcoc_pcp
=
df_pcoc_pcp
[
col
]
df_pcoc_pcp
.
rename
(
columns
=
{
'PCOC_V1'
:
'PCOC_pcp'
,
'PC_V1'
:
'PC_pcp'
,
'OC_V1'
:
'OC_pcp'
},
inplace
=
True
)
if
args
.
pcoc_C60
:
df_pcoc_C60
=
pd
.
read_csv
(
args
.
pcoc_C60
,
sep
=
"
\t
"
)
col
=
[
'Sites'
,
'PCOC'
,
'PC'
,
'OC'
]
...
...
@@ -183,7 +209,7 @@ if args.fna_infos :
df_fna_infos
[
"Sites"
]
=
df_fna_infos
.
index
+
1
#df_fna_infos = df_fna_infos[['Sites','P_distance']]
df_list
=
[
df
for
df
in
[
df_pcoc
,
df_pcoc_gamma
,
df_pcoc_C60
,
df_list
=
[
df
for
df
in
[
df_pcoc
,
df_pcoc_gamma
,
df_pcoc_C60
,
df_pcoc_v2
,
df_pcoc_pcp
,
df_diffsel
,
df_diffsel_bis
,
df_diffseldsparse
,
df_identical_LG
,
df_identical_WAG
,
df_topological_LG
,
df_topological_WAG
,
...
...
lib/scripts/physic_properties_profiles.tsv
0 → 100644
View file @
e5695953
AA,profil_ATSPMIVFL,profil_WHCYNGDEQKR,profil_G,profil_AV,profil_LIM,profil_P,profil_C,profil_FW,profil_DE,profil_KR,profil_ST,profil_NQ,profil_HY
A,13.614,0.634,2.179,40.772,0.138,1.965,0.125,0.085,0.558,0.063,3.792,0.066,0.025
C,0.19,3.483,0.321,0.014,0.022,0.035,83.09,0.802,0.01,0.276,0.469,0.027,1.609
D,0.223,12.109,1.704,0.168,0.008,0.026,0.051,0.008,36.819,0.048,0.074,1.448,0.425
E,0.311,14.374,3.161,0.313,0.022,0.037,0.004,0.019,55.801,1.407,0.048,1.275,0.06
F,3.453,0.216,0.023,0.14,1.782,0.08,0.928,73.59,0.011,0.006,0.355,0.009,2.289
G,0.56,7.735,83.464,0.672,0.023,0.037,1.478,0.255,1.761,1.071,1,0.161,0.052
H,0.165,9.321,0.042,0.007,0.087,0.345,0.481,0.064,0.152,0.573,0.046,2.116,47.416
I,14.69,0.236,0.048,5.11,37.588,0.064,0.023,0.903,0.027,0.121,0.802,0.106,0.028
K,0.394,13.825,0.23,0.041,0.07,0.035,0.032,0.013,1.73,53.901,0.169,1.598,0.04
L,9.532,0.429,0.053,1.1,38.364,2.828,0.122,7.497,0.028,0.112,0.777,0.378,0.407
M,6.905,0.15,0.03,0.856,12.485,0.018,0.021,0.061,0.015,0.128,0.247,0.013,0.005
N,0.472,8.668,0.318,0.045,0.044,0.034,0.124,0.013,1.491,0.895,2.22,44.947,0.959
P,8.003,0.547,0.063,0.475,0.578,84.213,0.056,0.098,0.031,0.104,2.538,1.043,0.514
Q,0.217,9.977,0.087,0.017,0.205,0.715,0.057,0.146,0.898,2.085,0.041,40.007,2.084
R,0.429,9.891,3.032,0.022,0.138,0.28,4.63,1.152,0.091,37.969,0.314,1.296,1.561
S,9.734,2.055,4.158,1.325,0.713,7.651,4.388,1.364,0.172,0.37,55.373,4.519,0.394
T,16.058,0.753,0.163,3.469,0.945,1.505,0.081,0.033,0.078,0.592,31.418,0.748,0.027
V,14.877,0.4,0.813,45.444,6.698,0.105,0.044,0.945,0.245,0.041,0.212,0.027,0.021
W,0.04,0.877,0.088,0.003,0.068,0.009,0.33,10.68,0.005,0.213,0.011,0.06,0.017
Y,0.13,4.321,0.022,0.006,0.022,0.019,3.934,2.275,0.078,0.025,0.092,0.156,42.068
lib/topological.ml
View file @
e5695953
...
...
@@ -63,7 +63,7 @@ let topological ?(descr="") ~(tree:_ pworkflow) ~(tree_conv:_ pworkflow) ~(faa:a
cmd
"cp"
[
dep
bppml_out_conv
;
dest
//
"estimates.bppml_out_conv.tsv"
];
cmd
"cp"
[
dep
bppml_config
;
dest
//
"estimates.bppml_config"
];
cmd
"cp"
[
dep
bppml_config_conv
;
dest
//
"estimates.bppml_config_conv"
];
cmd
"python"
~
img
:
Pcoc
.
img
[
cmd
"python"
~
img
:
Env
.
env_pcoc
[
file_dump
(
string
Scripts
.
calc_topological
)
;
opt
"-bppml_non_conv"
dep
bppml_out
;
opt
"-bppml_conv"
dep
bppml_out_conv
;
...
...
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