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OpenDAS
OpenFold
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231eb98b
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231eb98b
authored
Jan 29, 2022
by
Gustaf Ahdritz
Committed by
GitHub
Jan 29, 2022
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Update installation guide in README
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@@ -23,12 +23,10 @@ or `bfloat16` half-precision.
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@@ -23,12 +23,10 @@ or `bfloat16` half-precision.
## Installation (Linux)
## Installation (Linux)
Python dependencies available through
`pip`
are provided in
`requirements.txt`
.
All Python dependencies are specified in
`environment.yml`
. For producing sequence
OpenFold depends on
`openmm==7.5.1`
and
`pdbfixer`
, which are only available
alignments, you'll also need
`kalign`
, the
[
HH-suite
](
https://github.com/soedinglab/hh-suite
)
,
via
`conda`
. For producing sequence alignments, you'll also need
and one of {
`jackhmmer`
,
[
MMseqs2
](
https://github.com/soedinglab/mmseqs2
)
(
nightly
build)}
`kalign`
, the
[
HH-suite
](
https://github.com/soedinglab/hh-suite
)
, and one of
installed on on your system. Finally, some download scripts require
`aria2c`
.
{
`jackhmmer`
,
[
MMseqs2
](
https://github.com/soedinglab/mmseqs2
)
(
nightly
build)} installed on
on your system. Finally, some download scripts require
`aria2c`
.
For convenience, we provide a script that installs Miniconda locally, creates a
For convenience, we provide a script that installs Miniconda locally, creates a
`conda`
virtual environment, installs all Python dependencies, and downloads
`conda`
virtual environment, installs all Python dependencies, and downloads
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