feat: add cli to download datasets

pybis/src/python/pybis/cli.py

 import os
-<<<<<<< HEAD
 import syslog
 from datetime import datetime
 
@@ -10,13 +9,6 @@ from tabulate import tabulate
 from . import pybis
 
 syslog.openlog("pyBIS")
-=======
-import click
-from tabulate import tabulate
-from . import pybis
-from datetime import datetime
-from dateutil.relativedelta import relativedelta
->>>>>>> 033729a6ad (add cli)
 
 
 def openbis_conn_options(func):
@@ -25,17 +17,10 @@ def openbis_conn_options(func):
         click.option("-u", "--username", help="Username OPENBIS_USERNAME"),
         click.option("-p", "--password", help="Password OPENBIS_PASSWORD"),
         click.option(
-<<<<<<< HEAD
             "--ignore-certificate",
             is_flag=True,
             default=True,
             help="Ignore SSL certificate of openBIS host",
-=======
-            "--verify-certificate",
-            is_flag=True,
-            default=True,
-            help="Verify SSL certificate of openBIS host",
->>>>>>> 033729a6ad (add cli)
         ),
     ]
     # we use reversed(options) to keep the options order in --help
@@ -48,17 +33,10 @@ def login_options(func):
     options = [
         click.argument("hostname"),
         click.option(
-<<<<<<< HEAD
             "--ignore-certificate",
             is_flag=True,
             default=True,
             help="Ignore SSL certificate of openBIS host",
-=======
-            "--verify-certificate",
-            is_flag=True,
-            default=True,
-            help="Verify SSL certificate of openBIS host",
->>>>>>> 033729a6ad (add cli)
         ),
     ]
     # we use reversed(options) to keep the options order in --help
@@ -71,11 +49,7 @@ def get_openbis(
     hostname=None,
     username=None,
     password=None,
-<<<<<<< HEAD
     ignore_certificate=False,
-=======
-    verify_certificate=True,
->>>>>>> 033729a6ad (add cli)
     session_token_needed=False,
 ):
     """Order of priorities:
@@ -94,22 +68,14 @@ def get_openbis(
     if not hostname:
         hostname = config.get("hostname")
     if not hostname:
-<<<<<<< HEAD
         hostname = click.prompt("openBIS hostname")
-=======
-        hostname = click.prompt("openBIS hostname:")
->>>>>>> 033729a6ad (add cli)
 
     token = pybis.get_token_for_hostname(
         hostname, session_token_needed=session_token_needed
     )
     openbis = pybis.Openbis(
         url=hostname,
-<<<<<<< HEAD
         verify_certificates=not ignore_certificate,
-=======
-        verify_certificates=verify_certificate,
->>>>>>> 033729a6ad (add cli)
     )
     if token:
         try:
@@ -139,17 +105,13 @@ def get_openbis(
 
 
 @click.group()
-<<<<<<< HEAD
 @click.version_option()
-=======
->>>>>>> 033729a6ad (add cli)
 def cli():
     """pybis - command line access to openBIS"""
 
 
 @cli.group()
 @click.pass_obj
-<<<<<<< HEAD
 def space(ctx):
     """manage spaces"""
     pass
@@ -303,8 +265,6 @@ def download_dataset_in_collection(identifier, **kwargs):
 
 @cli.group()
 @click.pass_obj
-=======
->>>>>>> 033729a6ad (add cli)
 def sample(ctx):
     """manage samples"""
     pass
@@ -314,7 +274,6 @@ def sample(ctx):
 @openbis_conn_options
 @click.argument("identifier", required=True)
 def get_sample(identifier, **kwargs):
-<<<<<<< HEAD
     """get sample by its identifier or permId"""
     openbis = get_openbis(**kwargs)
     try:
@@ -382,9 +341,6 @@ def download_datasets_in_sample(identifier, **kwargs):
             syslog.LOG_INFO,
             f"{openbis.hostname} | {openbis.username} | {dataset.permId}",
         )
-=======
-    """get a sample by its identifier or permId"""
->>>>>>> 033729a6ad (add cli)
 
 
 @cli.group()
@@ -398,7 +354,6 @@ def dataset(ctx):
 @openbis_conn_options
 @click.argument("permid", required=True)
 def get_dataset(permid, **kwargs):
-<<<<<<< HEAD
     """get dataset meta-information by its permId"""
     openbis = get_openbis(**kwargs)
     try:
@@ -450,20 +405,6 @@ def download_dataset(permid, destination, fileno, **kwargs):
         syslog.LOG_INFO,
         f"{openbis.hostname} | {openbis.username} | {dataset.permId}",
     )
-=======
-    """get a dataset by its permId"""
-    print(permid)
-    print(kwargs)
-    openbis = get_openbis(**kwargs)
-    print(openbis)
-
-
-@dataset.command("download")
-@click.argument("permid", required=True)
-def download_dataset(permid, **kwargs):
-    """download a dataset by permId"""
-    click.echo(permid)
->>>>>>> 033729a6ad (add cli)
 
 
 @cli.command("local", context_settings=dict(ignore_unknown_options=True))