class Project(object):
DVC_DIR = '.dvc'
def __init__(self, root_dir):
self.root_dir = os.path.abspath(os.path.realpath(root_dir))
self.dvc_dir = os.path.join(self.root_dir, self.DVC_DIR)
self.config = Config(self.dvc_dir)
self.scm = SCM(self.root_dir)
self.lock = Lock(self.dvc_dir)
self.link_state = LinkState(self.root_dir, self.dvc_dir)
self.logger = Logger(self.config._config[Config.SECTION_CORE].get(
Config.SECTION_CORE_LOGLEVEL, None))
self.cache = Cache(self)
self.cloud = DataCloud(self, config=self.config._config)
self.updater = Updater(self.dvc_dir)
self._ignore()
self.updater.check()
@staticmethod
def init(root_dir=os.curdir, no_scm=False):
"""
Initiate dvc project in directory.
Args:
root_dir: Path to project's root directory.
Returns:
Project instance.
Raises:
KeyError: Raises an exception.
"""
root_dir = os.path.abspath(root_dir)
dvc_dir = os.path.join(root_dir, Project.DVC_DIR)
scm = SCM(root_dir)
if type(scm) == Base and not no_scm:
msg = "{} is not tracked by any supported scm tool(e.g. git).".format(
root_dir)
raise InitError(msg)
os.mkdir(dvc_dir)
config = Config.init(dvc_dir)
proj = Project(root_dir)
scm.add([config.config_file])
if scm.ignore_file():
scm.add([os.path.join(dvc_dir, scm.ignore_file())])
return proj
def _ignore(self):
l = [
self.link_state.state_file, self.link_state._lock_file.lock_file,
self.lock.lock_file, self.config.config_local_file,
self.updater.updater_file
]
if self.cache.local.cache_dir.startswith(self.root_dir):
l += [self.cache.local.cache_dir]
self.scm.ignore_list(l)
def install(self):
self.scm.install()
def to_dvc_path(self, path):
return os.path.relpath(path, self.root_dir)
def add(self, fname):
out = os.path.basename(os.path.normpath(fname))
stage_fname = out + Stage.STAGE_FILE_SUFFIX
cwd = os.path.dirname(os.path.abspath(fname))
stage = Stage.loads(project=self,
cmd=None,
deps=[],
outs=[out],
fname=stage_fname,
cwd=cwd)
stage.save()
stage.dump()
return stage
def remove(self, target, outs_only=False):
if not Stage.is_stage_file(target):
raise NotDvcFileError(target)
stage = Stage.load(self, target)
if outs_only:
stage.remove_outs()
else:
stage.remove()
return stage
def lock_stage(self, target, unlock=False):
if not Stage.is_stage_file(target):
raise NotDvcFileError(target)
stage = Stage.load(self, target)
stage.locked = False if unlock else True
stage.dump()
return stage
def move(self, from_path, to_path):
from_out = Output.loads_from(Stage(self, cwd=os.curdir),
[from_path])[0]
found = False
for stage in self.stages():
for out in stage.outs:
if out.path != from_out.path:
continue
if not stage.is_data_source:
raise DvcException(
'Dvcfile \'{}\' is not a data source.'.format(
stage.rel_path))
found = True
to_out = Output.loads_from(out.stage, [to_path], out.cache,
out.metric)[0]
out.move(to_out)
stage_base = os.path.basename(stage.path).rstrip(
Stage.STAGE_FILE_SUFFIX)
stage_dir = os.path.dirname(stage.path)
from_base = os.path.basename(from_path)
to_base = os.path.basename(to_path)
if stage_base == from_base:
os.unlink(stage.path)
stage.path = os.path.join(
stage_dir, to_base + Stage.STAGE_FILE_SUFFIX)
stage.dump()
if not found:
raise DvcException(
'Unable to find dvcfile with output \'{}\''.format(from_path))
def run(self,
cmd=None,
deps=[],
outs=[],
outs_no_cache=[],
metrics_no_cache=[],
fname=Stage.STAGE_FILE,
cwd=os.curdir,
no_exec=False):
stage = Stage.loads(project=self,
fname=fname,
cmd=cmd,
cwd=cwd,
outs=outs,
outs_no_cache=outs_no_cache,
metrics_no_cache=metrics_no_cache,
deps=deps)
if not no_exec:
stage.run()
stage.dump()
return stage
def imp(self, url, out):
stage_fname = out + Stage.STAGE_FILE_SUFFIX
cwd = os.path.dirname(os.path.abspath(out))
stage = Stage.loads(project=self,
cmd=None,
deps=[url],
outs=[out],
fname=stage_fname,
cwd=cwd)
stage.run()
stage.dump()
return stage
def _reproduce_stage(self, stages, node, force):
stage = stages[node].reproduce(force=force)
if not stage:
return []
stage.dump()
return [stage]
def reproduce(self, target, recursive=True, force=False):
stages = nx.get_node_attributes(self.graph(), 'stage')
node = os.path.relpath(os.path.abspath(target), self.root_dir)
if node not in stages:
raise NotDvcFileError(target)
if recursive:
return self._reproduce_stages(stages, node, force)
return self._reproduce_stage(stages, node, force)
def _reproduce_stages(self, stages, node, force):
result = []
for n in nx.dfs_postorder_nodes(self.graph(), node):
try:
result += self._reproduce_stage(stages, n, force)
except Exception as ex:
raise ReproductionError(stages[n].relpath, ex)
return result
def checkout(self, target=None):
if target:
if not Stage.is_stage_file(target):
raise NotDvcFileError(target)
stages = [Stage.load(self, target)]
else:
self.link_state.remove_all()
stages = self.stages()
for stage in stages:
stage.checkout()
def _used_cache(self, target=None, all_branches=False):
cache = {}
cache['local'] = []
cache['s3'] = []
cache['gs'] = []
cache['hdfs'] = []
cache['ssh'] = []
for branch in self.scm.brancher(all_branches=all_branches):
if target:
stages = [Stage.load(self, target)]
else:
stages = self.stages()
for stage in stages:
for out in stage.outs:
if not out.use_cache or not out.info:
continue
cache[out.path_info['scheme']] += [out.info]
return cache
def gc(self, all_branches=False):
clist = self._used_cache(target=None, all_branches=all_branches)
self.cache.local.gc(clist['local'])
if self.cache.s3:
self.cache.s3.gc(clist['s3'])
if self.cache.gs:
self.cache.gs.gc(clist['gs'])
if self.cache.ssh:
self.cache.ssh.gc(clist['ssh'])
if self.cache.hdfs:
self.cache.hdfs.gc(clist['hdfs'])
def push(self, target=None, jobs=1, remote=None, all_branches=False):
self.cloud.push(self._used_cache(target, all_branches)['local'],
jobs,
remote=remote)
def fetch(self, target=None, jobs=1, remote=None, all_branches=False):
self.cloud.pull(self._used_cache(target, all_branches)['local'],
jobs,
remote=remote)
def pull(self, target=None, jobs=1, remote=None, all_branches=False):
self.fetch(target, jobs, remote=remote, all_branches=all_branches)
self.checkout(target=target)
def _local_status(self, target=None):
status = {}
if target:
stages = [Stage.load(self, target)]
else:
stages = self.stages()
for stage in stages:
status.update(stage.status())
return status
def _cloud_status(self, target=None, jobs=1, remote=None):
import dvc.remote.base as cloud
status = {}
for md5, ret in self.cloud.status(self._used_cache(target)['local'],
jobs,
remote=remote):
if ret == cloud.STATUS_OK:
continue
prefix_map = {
cloud.STATUS_DELETED: 'deleted',
cloud.STATUS_NEW: 'new',
}
status[md5] = prefix_map[ret]
return status
def status(self, target=None, jobs=1, cloud=False, remote=None):
if cloud:
return self._cloud_status(target, jobs, remote=remote)
return self._local_status(target)
def _read_metric_json(self, fd, json_path):
parser = parse(json_path)
return [x.value for x in parser.find(json.load(fd))]
def _do_read_metric_tsv(self, reader, row, col):
if col != None and row != None:
return [reader[row][col]]
elif col != None:
return [r[col] for r in reader]
elif row != None:
return reader[row]
return None
def _read_metric_htsv(self, fd, htsv_path):
col, row = htsv_path.split(',')
row = int(row)
reader = list(csv.DictReader(fd, delimiter='\t'))
return self._do_read_metric_tsv(reader, row, col)
def _read_metric_tsv(self, fd, tsv_path):
col, row = tsv_path.split(',')
row = int(row)
col = int(col)
reader = list(csv.reader(fd, delimiter='\t'))
return self._do_read_metric_tsv(reader, row, col)
def _read_metric(self,
path,
json_path=None,
tsv_path=None,
htsv_path=None):
ret = None
if not os.path.exists(path):
return ret
try:
with open(path, 'r') as fd:
if json_path:
ret = self._read_metric_json(fd, json_path)
elif tsv_path:
ret = self._read_metric_tsv(fd, tsv_path)
elif htsv_path:
ret = self._read_metric_htsv(fd, htsv_path)
else:
ret = fd.read()
except Exception as exc:
self.logger.debug('Unable to read metric in \'{}\''.format(path),
exc)
return ret
def metrics_show(self,
path=None,
json_path=None,
tsv_path=None,
htsv_path=None,
all_branches=False):
res = {}
for branch in self.scm.brancher(all_branches=all_branches):
metrics = filter(lambda o: o.metric, self.outs())
fnames = [path] if path else map(lambda o: o.path, metrics)
for fname in fnames:
rel = os.path.relpath(fname)
metric = self._read_metric(fname,
json_path=json_path,
tsv_path=tsv_path,
htsv_path=htsv_path)
if not metric:
continue
if branch not in res:
res[branch] = {}
res[branch][rel] = metric
for branch, val in res.items():
self.logger.info('{}:'.format(branch))
for fname, metric in val.items():
self.logger.info('\t{}: {}'.format(fname, metric))
return res
def _metrics_modify(self, path, val):
apath = os.path.abspath(path)
for stage in self.stages():
for out in stage.outs:
if apath != out.path:
continue
if out.path_info['scheme'] != 'local':
msg = 'Output \'{}\' scheme \'{}\' is not supported for metrics'
raise DvcException(
msg.format(out.path, out.path_info['scheme']))
if out.use_cache:
msg = 'Cached output \'{}\' is not supported for metrics'
raise DvcException(msg.format(out.rel_path))
out.metric = val
stage.dump()
def metrics_add(self, path):
self._metrics_modify(path, True)
def metrics_remove(self, path):
self._metrics_modify(path, False)
def graph(self):
G = nx.DiGraph()
stages = self.stages()
outs = self.outs()
for stage in stages:
node = os.path.relpath(stage.path, self.root_dir)
G.add_node(node, stage=stage)
if stage.locked:
continue
for dep in stage.deps:
for out in outs:
if out.path != dep.path and not dep.path.startswith(
out.path + out.sep):
continue
dep_stage = out.stage
dep_node = os.path.relpath(dep_stage.path, self.root_dir)
G.add_node(dep_node, stage=dep_stage)
G.add_edge(node, dep_node)
return G
def stages(self):
stages = []
for root, dirs, files in os.walk(self.root_dir):
for fname in files:
path = os.path.join(root, fname)
if not Stage.is_stage_file(path):
continue
stages.append(Stage.load(self, path))
return stages
def outs(self):
outs = []
for stage in self.stages():
outs += stage.outs
return outs
class Project(object):
DVC_DIR = '.dvc'
def __init__(self, root_dir):
self.root_dir = os.path.abspath(os.path.realpath(root_dir))
self.dvc_dir = os.path.join(self.root_dir, self.DVC_DIR)
self.config = Config(self.dvc_dir)
self.scm = SCM(self.root_dir)
self.lock = Lock(self.dvc_dir)
self.link_state = LinkState(self.root_dir, self.dvc_dir)
self.logger = Logger(self.config._config[Config.SECTION_CORE].get(
Config.SECTION_CORE_LOGLEVEL, None))
self.cache = Cache(self)
self.cloud = DataCloud(cache=self.cache, config=self.config._config)
self.updater = Updater(self.dvc_dir)
self._ignore()
self.updater.check()
@staticmethod
def init(root_dir=os.curdir, no_scm=False):
"""
Initiate dvc project in directory.
Args:
root_dir: Path to project's root directory.
Returns:
Project instance.
Raises:
KeyError: Raises an exception.
"""
root_dir = os.path.abspath(root_dir)
dvc_dir = os.path.join(root_dir, Project.DVC_DIR)
scm = SCM(root_dir)
if type(scm) == Base and not no_scm:
msg = "{} is not tracked by any supported scm tool(e.g. git).".format(
root_dir)
raise InitError(msg)
os.mkdir(dvc_dir)
config = Config.init(dvc_dir)
proj = Project(root_dir)
scm.add([config.config_file])
if scm.ignore_file():
scm.add([os.path.join(dvc_dir, scm.ignore_file())])
return proj
def _ignore(self):
l = [
self.link_state.state_file, self.link_state._lock_file.lock_file,
self.lock.lock_file, self.config.config_local_file,
self.updater.updater_file
]
if self.cache.local.cache_dir.startswith(self.root_dir):
l += [self.cache.local.cache_dir]
self.scm.ignore_list(l)
def install(self):
self.scm.install()
def to_dvc_path(self, path):
return os.path.relpath(path, self.root_dir)
def add(self, fname):
out = os.path.basename(os.path.normpath(fname))
stage_fname = out + Stage.STAGE_FILE_SUFFIX
cwd = os.path.dirname(os.path.abspath(fname))
stage = Stage.loads(project=self,
cmd=None,
deps=[],
outs=[out],
fname=stage_fname,
cwd=cwd)
stage.save()
stage.dump()
return stage
def remove(self, target):
if not Stage.is_stage_file(target):
raise StageNotFoundError(target)
stage = Stage.load(self, target)
for out in stage.outs:
out.remove()
return stage
def run(self,
cmd=None,
deps=[],
outs=[],
outs_no_cache=[],
fname=Stage.STAGE_FILE,
cwd=os.curdir,
no_exec=False):
stage = Stage.loads(project=self,
fname=fname,
cmd=cmd,
cwd=cwd,
outs=outs,
outs_no_cache=outs_no_cache,
deps=deps)
if not no_exec:
stage.run()
stage.dump()
return stage
def _reproduce_stage(self, stages, node, force):
stage = stages[node].reproduce(force=force)
if not stage:
return []
stage.dump()
return [stage]
def reproduce(self, target, recursive=True, force=False):
stages = nx.get_node_attributes(self.graph(), 'stage')
node = os.path.relpath(os.path.abspath(target), self.root_dir)
if node not in stages:
raise StageNotFoundError(target)
if recursive:
return self._reproduce_stages(stages, node, force)
return self._reproduce_stage(stages, node, force)
def _reproduce_stages(self, stages, node, force):
result = []
for n in nx.dfs_postorder_nodes(self.graph(), node):
try:
result += self._reproduce_stage(stages, n, force)
except Exception as ex:
raise ReproductionError(stages[n].relpath, ex)
return result
def checkout(self, target=None):
if target:
if not Stage.is_stage_file(target):
raise StageNotFoundError(target)
stages = [Stage.load(self, target)]
else:
self.link_state.remove_all()
stages = self.stages()
for stage in stages:
stage.checkout()
def _used_cache(self, target=None):
cache_set = set()
if target:
stages = [Stage.load(self, target)]
else:
stages = self.stages()
for stage in stages:
for out in stage.outs:
if out.path_info['scheme'] != 'local':
continue
if not out.use_cache or not out.cache:
continue
cache_set |= set([out.cache])
if self.cache.local.is_dir_cache(out.cache) and os.path.isfile(
out.cache):
dir_cache = self.cache.local.dir_cache(out.cache)
cache_set |= set(dir_cache.values())
return list(cache_set)
def gc(self):
clist = self._used_cache()
for cache in self.cache.local.all():
if cache in clist:
continue
os.unlink(cache)
self.logger.info(u'\'{}\' was removed'.format(
self.to_dvc_path(cache)))
def push(self, target=None, jobs=1, remote=None):
return self.cloud.push(self._used_cache(target), jobs, remote=remote)
def fetch(self, target=None, jobs=1, remote=None):
return self.cloud.pull(self._used_cache(target), jobs, remote=remote)
def pull(self, target=None, jobs=1, remote=None):
ret = self.fetch(target, jobs, remote=remote)
self.checkout()
return ret
def _local_status(self, target=None):
status = {}
if target:
stages = [Stage.load(self, target)]
else:
stages = self.stages()
for stage in stages:
status.update(stage.status())
return status
def _cloud_status(self, target=None, jobs=1, remote=None):
status = {}
for target, ret in self.cloud.status(self._used_cache(target),
jobs,
remote=remote):
if ret == cloud.STATUS_UNKNOWN or ret == cloud.STATUS_OK:
continue
prefix_map = {
cloud.STATUS_DELETED: 'deleted',
cloud.STATUS_MODIFIED: 'modified',
cloud.STATUS_NEW: 'new',
}
path = os.path.relpath(target, self.cache.local.cache_dir)
status[path] = prefix_map[ret]
return status
def status(self, target=None, jobs=1, cloud=False, remote=None):
if cloud:
return self._cloud_status(target, jobs, remote=remote)
return self._local_status(target)
def _read_metric_json(self, fd, json_path):
parser = parse(json_path)
return [x.value for x in parser.find(json.load(fd))]
def _do_read_metric_tsv(self, reader, row, col):
if col != None and row != None:
return [reader[row][col]]
elif col != None:
return [r[col] for r in reader]
elif row != None:
return reader[row]
return None
def _read_metric_htsv(self, fd, htsv_path):
col, row = htsv_path.split(',')
row = int(row)
reader = list(csv.DictReader(fd, delimiter='\t'))
return self._do_read_metric_tsv(reader, row, col)
def _read_metric_tsv(self, fd, tsv_path):
col, row = tsv_path.split(',')
row = int(row)
col = int(col)
reader = list(csv.reader(fd, delimiter='\t'))
return self._do_read_metric_tsv(reader, row, col)
def _read_metric(self,
path,
json_path=None,
tsv_path=None,
htsv_path=None):
ret = None
try:
with open(path, 'r') as fd:
if json_path:
ret = self._read_metric_json(fd, json_path)
elif tsv_path:
ret = self._read_metric_tsv(fd, tsv_path)
elif htsv_path:
ret = self._read_metric_htsv(fd, htsv_path)
else:
ret = fd.read()
except Exception as exc:
self.logger.error('Unable to read metric in \'{}\''.format(path),
exc)
return ret
def metrics(self, path, json_path=None, tsv_path=None, htsv_path=None):
res = {}
saved = self.scm.active_branch()
for branch in self.scm.list_branches():
self.scm.checkout(branch)
self.checkout()
res[branch] = self._read_metric(path,
json_path=json_path,
tsv_path=tsv_path,
htsv_path=htsv_path)
self.scm.checkout(saved)
self.checkout()
return res
def graph(self):
G = nx.DiGraph()
stages = self.stages()
outs_map = {}
for stage in stages:
for o in stage.outs:
outs_map[o.path] = stage
for stage in stages:
node = os.path.relpath(stage.path, self.root_dir)
G.add_node(node, stage=stage)
for dep in stage.deps:
dep_stage = outs_map.get(dep.path, None)
if not dep_stage:
continue
dep_node = os.path.relpath(dep_stage.path, self.root_dir)
G.add_node(dep_node, stage=dep_stage)
G.add_edge(node, dep_node)
return G
def stages(self):
stages = []
for root, dirs, files in os.walk(self.root_dir):
for fname in files:
path = os.path.join(root, fname)
if not Stage.is_stage_file(path):
continue
stages.append(Stage.load(self, path))
return stages
def outs(self):
outs = []
for stage in self.stages():
outs += stage.outs
return outs
