安装samtools心酸之路
1，github中下载
git clone https://github.com/samtools/samtools.git
cd samtools
autoheader
autoconf -Wno-syntax
./configure
make
make install
报错！！！
FAILED. This error must be resolved in order to build HTSlib successfully.
各种方法无法解决后，想到使用conda安装，听说很简单。
2，使用conda安装
conda install samtools
调用samtools，报错
(base) [root@localhost samtools]# samtools
samtools: error while loading shared libraries: libcrypto.so.1.0.0: cannot open shared object fi
解决方法
参考资料
运行下面命令进行安装：
conda install -c bioconda samtools openssl=1.0
测试：
(base) [root@localhost ~]# samtools
Program: samtools (Tools for alignments in the SAM format)
Version: 1.9 (using htslib 1.9)
Usage: samtools <command> [options]
Commands:
-- Indexing
dict create a sequence dictionary file
faidx index/extract FASTA
fqidx index/extract FASTQ
index index alignment
-- Editing
calmd recalculate MD/NM tags and '=' bases
fixmate fix mate information
reheader replace BAM header
targetcut cut fosmid regions (for fosmid pool only)
addreplacerg adds or replaces RG tags
markdup mark duplicates
-- File operations
collate shuffle and group alignments by name
cat concatenate BAMs
merge merge sorted alignments
mpileup multi-way pileup
sort sort alignment file
split splits a file by read group
quickcheck quickly check if SAM/BAM/CRAM file appears intact
fastq converts a BAM to a FASTQ
fasta converts a BAM to a FASTA
-- Statistics
bedcov read depth per BED region
depth compute the depth
flagstat simple stats
idxstats BAM index stats
phase phase heterozygotes
stats generate stats (former bamcheck)
-- Viewing
flags explain BAM flags
tview text alignment viewer
view SAM<->BAM<->CRAM conversion
depad convert padded BAM to unpadded BAM
搞定
