Skip to content
Snippets Groups Projects
Commit 69255e06 authored by Luis Pedro Coelho's avatar Luis Pedro Coelho
Browse files

MIN numpy and pandas are necessary too

Mention in README
Check before import
parent 5b908174
No related branches found
No related tags found
No related merge requests found
......@@ -40,14 +40,14 @@ universe repository before):
If you use [anaconda](https://www.continuum.io/downloads), you can create an
environment with all necessary dependencies using the following commands:
conda create --name metaSNV boost htslib pkg-config
conda create --name metaSNV boost htslib pkg-config numpy pandas
source activate metaSNV
export CFLAGS=-I$CONDA_ENV_PATH/include
export LD_LIBRARY_PATH=$CONDA_ENV_PATH/lib:$LD_LIBRARY_PATH
If you do not have a C++ compiler, anaconda can also install G++:
conda create --name metaSNV boost htslib pkg-config
conda create --name metaSNV boost htslib pkg-config numpy pandas
source activate metaSNV
# Add this command:
conda install gcc
......
#!/usr/bin/env python
import os # interacting with operating system
import sys # interact with system commandline
import time # print current date/time
import argparse # manage command line options and arguments
import os
import sys
import time
import argparse
import glob
import numpy as np
import pandas as pd
try:
import numpy as np
except ImportError:
sys.stderr.write("Numpy is necessary to run postfiltering.\n")
sys.exit(1)
try:
import pandas as pd
except ImportError:
sys.stderr.write("Pandas is necessary to run postfiltering.\n")
sys.exit(1)
basedir = os.path.dirname(os.path.abspath(__file__))
......
0% Loading or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment