from anadama2 import Workflow
workflow = Workflow(remove_options=["input", "output"])
# add a task to download the file
workflow.add_task(
"wget ftp://public-ftp.hmpdacc.org/HMMCP/finalData/hmp1.v35.hq.otu.counts.bz2 -O [targets[0]]",
targets="hmp1.v35.hq.otu.counts.bz2")
# add a task to decompress the file
workflow.add_task("bzip2 -d < [depends[0]] > [targets[0]]",
depends="hmp1.v35.hq.otu.counts.bz2",
targets="hmp1.v35.hq.otu.counts")
def remove_end_tabs_function(task):
with open(task.targets[0].name, 'w') as file_handle_out:
for line in open(task.depends[0].name):
file_handle_out.write(line.rstrip() + "\n")
# add a task with a function to remove the end tabs from the file
workflow.add_task(remove_end_tabs_function,
depends="hmp1.v35.hq.otu.counts",
targets="hmp1.v35.hq.otu.counts.notabs",
name="remove_end_tabs")
workflow.go()
# -*- coding: utf-8 -*-
from anadama2 import Workflow
ctx = Workflow(remove_options=["input", "output"])
ctx.do("wget -qO- checkip.dyndns.com > [t:my_ip.txt]")
ctx.do(r"sed 's|.*Address: \(.*[0-9]\)<.*|\1|' [d:my_ip.txt] > [t:ip.txt]")
ctx.do("whois $(cat [d:ip.txt]) > [t:whois.txt]")
ctx.go()
