Python:File在命令行上运行,但不在crontab上运行

Question

所以我有一个看起来像这样的文件:

#!/usr/bin/python
import MySQLdb
import subprocess
from subprocess import call
import re

conx = MySQLdb.connect (user = 'root', passwd = '******', db = 'vaxijen_antigens')
cursor = conx.cursor()
cursor.execute('select * from sequence')
row = cursor.fetchall()

f = open('/home/rv/ncbi-blast-2.2.23+/db/vdatabase.fasta', 'w')

for i in row:
    f.write('>'+i[0].strip()+'\n')
    s = re.sub(r'[^\w]','',str(i[1]))
    s = ''.join(s)
    for k in range(0, len(s), 60):
        f.write('%s\n' % (s[k:k+60]))
    f.write('\n')

f.close()

subprocess.call(['formatdb', '-p', 'T', '-i', r'/home/rv/ncbi-blast-2.2.23+/db/vdatabase.fasta'])

该文件从命令行运行没有问题,但当我尝试使用crontab运行它时,我收到此错误:

  File "/home/rv/ncbi-blast-2.2.23+/db/formatdb.py", line 29, in <module>
    subprocess.call(['formatdb', '-p', 'T', '-i',
r'/home/rv/ncbi-blast-2.2.23+/db/vdatabase.fasta'])
OSError: [Errno 2] No such file or directory

我不明白,该文件存在于该目录中,我进行了双重和三重检查.我尝试将文件路径转换为原始字符串,因此路径之前的小写"r"但是也没有.

Answer 1

我怀疑它在你的子进程调用中抱怨"formatdb"的路径.尝试将其更改为完整路径:

subprocess.call(['/home/path/formatdb', ...])