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VEBER Philippe
codepi
Commits
566892d0
Commit
566892d0
authored
Jun 22, 2018
by
Carine Rey
Browse files
add some TODOs
parent
3889e9ef
Changes
1
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lib/convergence_detection.ml
lib/convergence_detection.ml
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lib/convergence_detection.ml
View file @
566892d0
open
Core
open
Bistro
.
EDSL
open
Bistro
.
Std
open
Core
open
File_formats
open
Bistro_bioinfo
.
Std
...
...
@@ -11,7 +11,7 @@ type det_out =
|
Pcoc_out
|
Diffsel_out
let
pcoc
?
plot_complete
?
gamma
~
(
faa
:
aminoacid_fasta
workflow
)
~
(
tree
:_
workflow
)
:
(*`pcoc*)
det_out
directory
workflow
=
let
pcoc
?
plot_complete
?
gamma
~
(
faa
:
aminoacid_fasta
workflow
)
~
(
tree
:_
workflow
)
:
(*`pcoc
TODO
*)
det_out
directory
workflow
=
let
env
=
docker_image
~
account
:
"carinerey"
~
name
:
"pcoc"
~
tag
:
"06212018"
()
in
workflow
~
descr
:
"convergence_detection.pcoc"
[
cmd
"pcoc_det.py"
~
env
[
...
...
@@ -22,10 +22,10 @@ let pcoc ?plot_complete ?gamma ~(faa:aminoacid_fasta workflow) ~(tree:_ workflo
option
(
flag
string
"--gamma"
)
gamma
;
option
(
flag
string
"--plot --plot_complete_ali"
)
plot_complete
;
]
]
]
(* TODO / selector ["RUN*/*.results.tsv"] *)
let
diffsel
~
(
phy_n
:
nucleotide_phylip
workflow
)
~
(
tree
:
_
workflow
)
~
(
w_every
:
int
)
~
(
n_cycles
:
int
)
:
(*`diffsel*)
det_out
directory
workflow
=
let
diffsel
~
(
phy_n
:
nucleotide_phylip
workflow
)
~
(
tree
:
_
workflow
)
~
(
w_every
:
int
)
~
(
n_cycles
:
int
)
:
(*`diffsel
TODO
*)
det_out
directory
workflow
=
let
env
=
docker_image
~
account
:
"vlanore"
~
name
:
"diffsel"
~
tag
:
"v1.0"
()
in
(*_build/diffsel -t data/samhd1.tree -d data/samhd1.ali -ncond 3 -x 1 10000 myrun*)
workflow
~
descr
:
"convergence_detection.diffsel"
[
...
...
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