以下是手動安裝的步驟
步驟一：安裝Python-2.7.17
wget https://www.python.org/ftp/python/2.7.17/Python-2.7.17.tgz
md5sum Python-2.7.17.tgz27a7919fa8d1364bae766949aaa91a5b Python-2.7.17.tgz
tar zxf Python-2.7.17.tgz && cd Python-2.7.17 ./configure --prefix=/Software/Python/2.7.17-r910 \ --enable-unicode=ucs2 make -j 24 >make.log 2>&1 & make install /Software/Python/2.7.17-r910/bin/python --version
Python 2.7.17步驟二：安裝pip-20.3.3
wget https://bootstrap.pypa.io/get-pip.py /Software/Python/2.7.17-r910/bin/python get-pip.py \ --prefix=/Software/Python/2.7.17-r910 /Software/Python/2.7.17-r910/bin/pip list
Package Version
---------- -------
pip 20.3.3
setuptools 44.1.1
wheel 0.36.2步驟三：安裝CrossMap-0.2.9
/Software/Python/2.7.17-r910/bin/pip install CrossMap
Collecting CrossMap
Downloading CrossMap-0.2.9-py2-none-any.whl (84 kB)
|████████████████████████████████| 84 kB 1.2 MB/s
Collecting bx-python
Downloading bx_python-0.8.9-cp27-cp27m-manylinux2010_x86_64.whl (3.5 MB)
|████████████████████████████████| 3.5 MB 11.7 MB/s
Collecting pysam
Downloading pysam-0.16.0.1-cp27-cp27m-manylinux1_x86_64.whl (9.2 MB)
|████████████████████████████████| 9.2 MB 14.1 MB/s
Collecting cython>=0.17
Downloading Cython-0.29.21-cp27-cp27m-manylinux1_x86_64.whl (1.9 MB)
|████████████████████████████████| 1.9 MB 26.0 MB/s
Collecting numpy
Downloading numpy-1.16.6-cp27-cp27m-manylinux1_x86_64.whl (17.0 MB)
|████████████████████████████████| 17.0 MB 53 kB/s
Collecting six>=1.13.0
Using cached six-1.15.0-py2.py3-none-any.whl (10 kB)
Installing collected packages: numpy, six, bx-python, pysam, cython, CrossMap
Successfully installed CrossMap-0.2.9 bx-python-0.8.9 cython-0.29.21 numpy-1.16.6 pysam-0.16.0.1 six-1.15.0/Software/Python/2.7.17-r910/bin/CrossMap.py
Program: CrossMap (v0.2.9)
Description:
CrossMap is a program for convenient conversion of genome coordinates and genome
annotation files between assemblies (eg. lift from human hg18 to hg19 or vice
versa). It supports file in BAM, SAM, BED, Wiggle, BigWig, GFF, GTF and VCF
format.
Usage: CrossMap.py <command> [options]
bam convert alignment file in BAM or SAM format.
bed convert genome cooridnate or annotation file in BED or BED-like format.
bigwig convert genome coordinate file in BigWig format.
gff convert genome cooridnate or annotation file in GFF or GTF format.
vcf convert genome coordinate file in VCF format.
wig convert genome coordinate file in Wiggle, or bedGraph format.參考資料
_EOF_
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