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zavolan_public
PAQR_KAPAC
Commits
6408baf5
Commit
6408baf5
authored
6 years ago
by
BIOPZ-Schmidt Ralf
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added pymongo package to requirements file of the py2 environment
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README.md
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requirements_py2.txt
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requirements_py2.txt
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@@ -52,12 +52,12 @@ With the installation of the environment, the following software is installed as
#### Step 3: Creating a new python2 environment to run PAQR
PAQR relies on packages that are available only for python2 currently. To ensure that PAQR runs properly, this python2 environment is installed.
```
bash
conda create
-n
py2_paqr
python
=
2
-c
bioconda
--file
requirements_py2.txt
conda create
-n
py2_paqr
python
=
2
-c
bioconda
-c
anaconda
--file
requirements_py2.txt
```
The following python packages are available in this python2 environment:
-
[HTSeq]
(https://htseq.readthedocs.io/en/release_0.9.1/index.html) (v0.7.2)
-
[RseQC]
(http://rseqc.sourceforge.net) (2.6.4)
-
[
HTSeq
](
https://htseq.readthedocs.io/en/release_0.9.1/index.html
)
(
v0.7.2
)
-
[
RseQC
](
http://rseqc.sourceforge.net
)
(
v
2.6.4
)
#### Step 4: Activate the environment
(only the python3 environment needs to be activated; the py2_paqr environment is only used internally)
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requirements_py2.txt
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@@ -3,3 +3,4 @@
python=2.7.11
htseq=0.7.2
rseqc=2.6.4
pymongo=3.4.0
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