geoseeq 0.4.0__py3-none-any.whl → 0.5.0__py3-none-any.whl

geoseeq/cli/main.py

@@ -13,7 +13,7 @@ from .view import cli_view
 from .search import cli_search
 from geoseeq.vc.cli import cli_vc
 from geoseeq.knex import DEFAULT_ENDPOINT
-from .shared_params.config import set_profile
+from geoseeq.utils import set_profile
 from .shared_params.opts_and_args import overwrite_option
 from .detail import cli_detail
 from .run import cli_app
@@ -53,7 +53,7 @@ def version():
     Use of this tool implies acceptance of the GeoSeeq End User License Agreement.
     Run `geoseeq eula show` to view the EULA.
     """
-    click.echo('0.4.0')  # remember to update setup
+    click.echo('0.5.0')  # remember to update setup
 
 
 @main.group('advanced')

geoseeq/cli/shared_params/common_state.py

@@ -4,7 +4,7 @@ import click
 from geoseeq.knex import DEFAULT_ENDPOINT
 
 from geoseeq import Knex
-from .config import load_profile
+from geoseeq.utils import load_profile
 
 logger = logging.getLogger('geoseeq_api')
 

geoseeq/cli/shared_params/opts_and_args.py

@@ -24,4 +24,4 @@ org_id_arg = click.argument('org_id', nargs=1)
 project_id_arg = click.argument('project_id', nargs=1)
 pipeline_id_arg = click.argument('pipeline_id', nargs=1)
 sample_ids_arg = click.argument('sample_ids', nargs=-1)
-folder_id_arg = click.argument('folder_id', nargs=1)
+folder_id_arg = click.argument('folder_id', nargs=1)

geoseeq/constants.py

@@ -1,2 +1,10 @@
+from os import environ
+from os.path import join
+
 FIVE_MB = 5 * (1024 ** 2)
-FASTQ_MODULE_NAMES = ['short_read::paired_end', 'short_read::single_end', 'long_read::nanopore']
+FASTQ_MODULE_NAMES = ['short_read::paired_end', 'short_read::single_end', 'long_read::nanopore']
+DEFAULT_ENDPOINT = "https://backend.geoseeq.com"
+
+CONFIG_FOLDER = environ.get("XDG_CONFIG_HOME", join(environ["HOME"], ".config"))
+CONFIG_DIR = environ.get("GEOSEEQ_CONFIG_DIR", join(CONFIG_FOLDER, "geoseeq"))
+PROFILES_PATH = join(CONFIG_DIR, "profiles.json")

geoseeq/id_constructors/from_blobs.py

@@ -1,6 +1,8 @@
 from geoseeq import GeoseeqNotFoundError
+from geoseeq.knex import with_knex
 
 
+@with_knex
 def org_from_blob(knex, blob, already_fetched=True, modified=False):
     """Return an Organization object from a blob."""
     from geoseeq.organization import Organization  # import here to avoid circular import
@@ -11,6 +13,7 @@ def org_from_blob(knex, blob, already_fetched=True, modified=False):
     return org
 
 
+@with_knex
 def project_from_blob(knex, blob, already_fetched=True, modified=False):
     """Return a Project object from a blob."""
     org = org_from_blob(
@@ -27,6 +30,7 @@ def project_from_blob(knex, blob, already_fetched=True, modified=False):
 sample_group_from_blob = project_from_blob  # Alias
 
 
+@with_knex
 def sample_from_blob(knex, blob, already_fetched=True, modified=False):
     """Return a Sample object from a blob."""
     lib = sample_group_from_blob(
@@ -40,6 +44,7 @@ def sample_from_blob(knex, blob, already_fetched=True, modified=False):
     return sample
 
 
+@with_knex
 def project_result_folder_from_blob(knex, blob, already_fetched=True, modified=False):
     """Return a ProjectResultFolder object from a blob."""
     group = project_from_blob(
@@ -58,6 +63,7 @@ def project_result_folder_from_blob(knex, blob, already_fetched=True, modified=F
 sample_group_ar_from_blob = project_result_folder_from_blob  # Alias
 
 
+@with_knex
 def sample_result_folder_from_blob(knex, blob, already_fetched=True, modified=False):
     """Return a SampleResultFolder object from a blob."""
     sample = sample_from_blob(
@@ -76,6 +82,7 @@ def sample_result_folder_from_blob(knex, blob, already_fetched=True, modified=Fa
 sample_ar_from_blob = sample_result_folder_from_blob  # Alias
 
 
+@with_knex
 def sample_result_file_from_blob(knex, blob, already_fetched=True, modified=False):
     """Return a SampleResultFile object from a blob."""
     ar = sample_result_folder_from_blob(
@@ -92,6 +99,7 @@ def sample_result_file_from_blob(knex, blob, already_fetched=True, modified=Fals
 sample_ar_field_from_blob = sample_result_file_from_blob  # Alias
 
 
+@with_knex
 def project_result_file_from_blob(knex, blob, already_fetched=True, modified=False):
     """Return a ProjectResultFile object from a blob."""
     ar = project_result_folder_from_blob(
@@ -108,6 +116,7 @@ def project_result_file_from_blob(knex, blob, already_fetched=True, modified=Fal
 sample_group_ar_field_from_blob = project_result_file_from_blob  # Alias
 
 
+@with_knex
 def pipeline_from_blob(knex, blob, already_fetched=True, modified=False):
     """Return a Pipeline object from a blob."""
     from geoseeq.pipeline import Pipeline  # import here to avoid circular import
@@ -120,6 +129,7 @@ def pipeline_from_blob(knex, blob, already_fetched=True, modified=False):
 app_from_blob = pipeline_from_blob  # Alias
 
 
+@with_knex
 def pipeline_run_from_blob(knex, blob, already_fetched=True, modified=False):
     """Return a Pipeline run object from a blob."""
     from geoseeq.pipeline import PipelineRun  # import here to avoid circular import

geoseeq/id_constructors/from_ids.py

@@ -22,6 +22,7 @@ from .from_names import (
     result_file_from_name,
 )
 from .utils import is_grn_or_uuid, is_name
+from geoseeq.knex import with_knex
 
 
 def _generic_from_id(knex, id, from_uuid_func, from_name_func):
@@ -33,31 +34,37 @@ def _generic_from_id(knex, id, from_uuid_func, from_name_func):
     raise ValueError(f'"{id}" is not a GRN, UUID, or name')
 
 
+@with_knex
 def org_from_id(knex, id):
     """Return the organization object which the id points to."""
     return _generic_from_id(knex, id, org_from_uuid, org_from_name)
 
 
+@with_knex
 def project_from_id(knex, id):
     """Return the project object which the id points to."""
     return _generic_from_id(knex, id, project_from_uuid, project_from_name)
 
 
+@with_knex
 def sample_from_id(knex, id):
     """Return the sample object which the id points to."""
     return _generic_from_id(knex, id, sample_from_uuid, sample_from_name)
 
 
+@with_knex
 def sample_result_folder_from_id(knex, id):
     """Return the sample result folder object which the id points to."""
     return _generic_from_id(knex, id, sample_result_folder_from_uuid, sample_result_folder_from_name)
 
 
+@with_knex
 def project_result_folder_from_id(knex, id):
     """Return the project result folder object which the id points to."""
     return _generic_from_id(knex, id, project_result_folder_from_uuid, project_result_folder_from_name)
 
 
+@with_knex
 def result_folder_from_id(knex, id):
     """Return a result folder object which the id points to.
     
@@ -66,16 +73,19 @@ def result_folder_from_id(knex, id):
     return _generic_from_id(knex, id, result_folder_from_uuid, result_folder_from_name)
 
 
+@with_knex
 def sample_result_file_from_id(knex, id):
     """Return the sample result file object which the id points to."""
     return _generic_from_id(knex, id, sample_result_file_from_uuid, sample_result_file_from_name)
 
 
+@with_knex
 def project_result_file_from_id(knex, id):
     """Return the project result file object which the id points to."""
     return _generic_from_id(knex, id, project_result_file_from_uuid, project_result_file_from_name)
 
 
+@with_knex
 def result_file_from_id(knex, id):
     """Return a result file object which the id points to.
     

geoseeq/id_constructors/from_names.py

@@ -14,8 +14,10 @@ This makes them more human-readable, but not reliable for permanent references.
 """
 from geoseeq.organization import Organization
 from geoseeq import GeoseeqNotFoundError
+from geoseeq.knex import with_knex
 
 
+@with_knex
 def org_from_name(knex, name):
     """Return the organization object which the name points to.
     
@@ -28,6 +30,7 @@ def org_from_name(knex, name):
     return org
 
 
+@with_knex
 def project_from_name(knex, name):
     """Return the project object which the name points to.
     
@@ -41,6 +44,7 @@ def project_from_name(knex, name):
     return proj
 
 
+@with_knex
 def sample_from_name(knex, name):
     """Return the sample object which the name points to.
     
@@ -54,6 +58,7 @@ def sample_from_name(knex, name):
     return sample
 
 
+@with_knex
 def sample_result_folder_from_name(knex, name):
     """Return the sample result folder object which the name points to.
     
@@ -67,6 +72,7 @@ def sample_result_folder_from_name(knex, name):
     return ar
 
 
+@with_knex
 def project_result_folder_from_name(knex, name):
     """Return the project result folder object which the name points to.
     
@@ -80,6 +86,7 @@ def project_result_folder_from_name(knex, name):
     return rf
 
 
+@with_knex
 def result_folder_from_name(knex, name):
     """Return a result folder object which the name points to.
     
@@ -95,6 +102,7 @@ def result_folder_from_name(knex, name):
         return project_result_folder_from_name(knex, name)
 
 
+@with_knex
 def sample_result_file_from_name(knex, name):
     """Return the sample result file object which the name points to.
     
@@ -108,6 +116,7 @@ def sample_result_file_from_name(knex, name):
     return r_file
 
 
+@with_knex
 def project_result_file_from_name(knex, name):
     """Return the project result file object which the name points to.
     
@@ -121,6 +130,7 @@ def project_result_file_from_name(knex, name):
     return r_file
 
 
+@with_knex
 def result_file_from_name(knex, name):
     """Return a result file object which the name points to.
     

geoseeq/id_constructors/from_uuids.py

@@ -1,8 +1,9 @@
 from geoseeq import GeoseeqNotFoundError
-
+from geoseeq.knex import with_knex
 from .from_blobs import *
 
 
+@with_knex
 def org_from_uuid(knex, uuid):
     """Return the organization object which the uuid points to."""
     blob = knex.get(f"organizations/{uuid}")
@@ -10,6 +11,7 @@ def org_from_uuid(knex, uuid):
     return org
 
 
+@with_knex
 def project_from_uuid(knex, uuid):
     """Return the project object which the uuid points to."""
     blob = knex.get(f"sample_groups/{uuid}")
@@ -20,6 +22,7 @@ def project_from_uuid(knex, uuid):
 sample_group_from_uuid = project_from_uuid  # Alias
 
 
+@with_knex
 def sample_from_uuid(knex, uuid):
     """Return the sample object which the uuid points to."""
     blob = knex.get(f"samples/{uuid}")
@@ -27,6 +30,7 @@ def sample_from_uuid(knex, uuid):
     return sample
 
 
+@with_knex
 def sample_result_folder_from_uuid(knex, uuid):
     """Return the sample result folder object which the uuid points to."""
     blob = knex.get(f"sample_ars/{uuid}")
@@ -37,6 +41,7 @@ def sample_result_folder_from_uuid(knex, uuid):
 sample_ar_from_uuid = sample_result_folder_from_uuid  # Alias
 
 
+@with_knex
 def project_result_folder_from_uuid(knex, uuid):
     """Return the project result folder object which the uuid points to."""
     blob = knex.get(f"sample_group_ars/{uuid}")
@@ -47,6 +52,7 @@ def project_result_folder_from_uuid(knex, uuid):
 sample_group_ar_from_uuid = project_result_folder_from_uuid  # Alias
 
 
+@with_knex
 def result_folder_from_uuid(knex, uuid):
     """Return a result folder object which the uuid points to.
 
@@ -58,6 +64,7 @@ def result_folder_from_uuid(knex, uuid):
         return project_result_folder_from_uuid(knex, uuid)
 
 
+@with_knex
 def sample_result_file_from_uuid(knex, uuid):
     """Return the sample result file object which the uuid points to."""
     blob = knex.get(f"sample_ar_fields/{uuid}")
@@ -68,6 +75,7 @@ def sample_result_file_from_uuid(knex, uuid):
 sample_ar_field_from_uuid = sample_result_file_from_uuid  # Alias
 
 
+@with_knex
 def project_result_file_from_uuid(knex, uuid):
     """Return the project result file object which the uuid points to."""
     blob = knex.get(f"sample_group_ar_fields/{uuid}")
@@ -78,6 +86,7 @@ def project_result_file_from_uuid(knex, uuid):
 sample_group_ar_field_from_uuid = project_result_file_from_uuid  # Alias
 
 
+@with_knex
 def result_file_from_uuid(knex, uuid):
     """Return a result file object which the uuid points to.
 
@@ -89,6 +98,7 @@ def result_file_from_uuid(knex, uuid):
         return project_result_file_from_uuid(knex, uuid)
     
 
+@with_knex
 def pipeline_from_uuid(knex, uuid):
     """Return the pipeline object which the uuid points to."""
     blob = knex.get(f"pipelines/{uuid}")
@@ -99,6 +109,7 @@ def pipeline_from_uuid(knex, uuid):
 app_from_uuid = pipeline_from_uuid  # Alias
 
 
+@with_knex
 def pipeline_run_from_uuid(knex, uuid):
     """Return a pipeline run object which the uuid points to."""
     blob = knex.get(f"app_runs/{uuid}")

geoseeq/id_constructors/resolvers.py

@@ -22,8 +22,10 @@ from .from_names import (
     result_file_from_name,
 )
 from .utils import is_name, is_grn
+from geoseeq.knex import with_knex
 
 
+@with_knex
 def resolve_id(knex, id):
     """Return the object which the id points to."""
     if is_grn(id):
@@ -33,6 +35,7 @@ def resolve_id(knex, id):
     raise ValueError(f'"{id}" is not a GRN, or name. UUIDs cannot be resolved without a type')
 
 
+@with_knex
 def resolve_name(knex, name):
     """Return the object which the name points to."""
     assert is_name(name), f'"{name}" is not a name'
@@ -56,6 +59,7 @@ def resolve_name(knex, name):
     raise GeoseeqNotFoundError(f'Name "{name}" not found')
 
 
+@with_knex
 def resolve_grn(knex, grn):
     """Return the object which the grn points to."""
     assert is_grn(grn), f'"{grn}" is not a GRN'

geoseeq/knex.py

@@ -2,8 +2,8 @@ import logging
 import requests
 from os import environ
 from .file_system_cache import FileSystemCache
-
-DEFAULT_ENDPOINT = "https://backend.geoseeq.com"
+from geoseeq.utils import load_auth_profile
+from geoseeq.constants import DEFAULT_ENDPOINT
 
 
 logger = logging.getLogger("geoseeq_api")  # Same name as calling module
@@ -205,3 +205,36 @@ class Knex:
         response = self.sess.delete(f"{self.endpoint_url}/{url}", json=json)
         logger.debug(f"DELETE request response:\n{response}")
         return self._handle_response(response, json_response=False, **kwargs)
+
+    @classmethod
+    def load_profile(cls, profile=""):
+        """Return a knex authenticated with a profile."""
+        endpoint, token = load_auth_profile(profile)
+        knex = cls(endpoint)
+        knex.add_api_token(token)
+        return knex
+    
+
+def with_knex(func):
+    def wrapper(*args, **kwargs):
+        # check if any of the arguments are a knex instance
+        any_knex = any([isinstance(arg, Knex) for arg in args])
+        if any_knex:
+            return func(*args, **kwargs)
+        else:
+            varnames = [
+                varname for varname in func.__code__.co_varnames
+                if varname != "knex"
+            ]
+            kwargs.update(zip(varnames, args))
+            if "knex" not in kwargs:
+                profile = kwargs.pop("profile", "")
+                kwargs['knex'] = Knex.load_profile(profile=profile)
+            # reorder kwargs to match the function signature
+            reordered = {
+                key: kwargs[key] for key in func.__code__.co_varnames
+                if key in kwargs
+            }
+            return func(**reordered)
+    return wrapper
+        

geoseeq/project.py

@@ -260,7 +260,7 @@ class Project(RemoteObject):
     @property
     def n_samples(self):
         """Return the number of samples in this project."""
-        if self.hasattr('samples_count') and self.samples_count is not None:
+        if hasattr(self, 'samples_count') and self.samples_count is not None:
             return self.samples_count
         return len(list(self.get_sample_uuids()))
     

geoseeq/utils.py

@@ -4,11 +4,47 @@ import logging
 from ftplib import FTP
 from threading import Timer
 from .file_system_cache import FileSystemCache
+from os.path import join, exists
+import json
+from os import environ, makedirs
+from .constants import CONFIG_DIR, PROFILES_PATH, DEFAULT_ENDPOINT
 
 logger = logging.getLogger('geoseeq_api')  # Same name as calling module
 logger.addHandler(logging.NullHandler())  # No output unless configured by calling program
 
 
+def load_auth_profile(profile=""):
+    """Return an endpoit and a token"""
+    profile = profile or "__default__"
+    with open(PROFILES_PATH, "r") as f:
+        profiles = json.load(f)
+    if profile in profiles:
+        return profiles[profile]["endpoint"], profiles[profile]["token"]
+    raise KeyError(f"Profile {profile} not found.")
+
+
+def set_profile(token, endpoint=DEFAULT_ENDPOINT, profile="", overwrite=False):
+    """Write a profile to a config file.
+    
+    Raises KeyError if profile already exists.
+    """
+    if not exists(PROFILES_PATH):
+        makedirs(CONFIG_DIR)
+        with open(PROFILES_PATH, "w") as f:
+            json.dump({}, f)
+    with open(PROFILES_PATH, "r") as f:
+        profiles = json.load(f)
+    profile = profile or "__default__"
+    if profile in profiles and not overwrite:
+        raise KeyError(f"Profile {profile} already exists.")
+    profiles[profile] = {
+        "token": token,
+        "endpoint": endpoint,
+    }
+    with open(PROFILES_PATH, "w") as f:
+        json.dump(profiles, f, indent=4)
+
+
 def paginated_iterator(knex, initial_url, error_handler=None):
     cache = FileSystemCache()
     result = cache.get_cached_blob(initial_url)

{geoseeq-0.4.0.dist-info → geoseeq-0.5.0.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: geoseeq
-Version: 0.4.0
+Version: 0.5.0
 Summary: # Geoseeq API Client
 Author: David C. Danko
 Author-email: dcdanko@biotia.io

{geoseeq-0.4.0.dist-info → geoseeq-0.5.0.dist-info}/RECORD

@@ -2,17 +2,17 @@ geoseeq/__init__.py,sha256=FxA5ioZVxUR3XAjllE5F2mtcUk8NDSBD-VYmMp6U254,864
 geoseeq/app.py,sha256=Y6d1UzxFLfE3RNccATbFCVi6kH3eFmzwoUbeR2Ry09A,2387
 geoseeq/blob_constructors.py,sha256=AkWpDQY0EdGMxF1p6eRspyHKubcUdiW4it-_Q7S2QWk,188
 geoseeq/bulk_creators.py,sha256=pdn-Dv7yv5SFv-PfDuQbuOnw2W4-BfIfRJVRAhM8U6s,2115
-geoseeq/constants.py,sha256=2sO50sItJsBCHFvfUCvB2NziQnJKG6lFOFDMu3IHzaw,122
+geoseeq/constants.py,sha256=h9RURz4xs2bZyDrSGocej7ANJvRLr_H1H7JRxpNUXJM,431
 geoseeq/file_system_cache.py,sha256=7pdM-1VncOvjkYv2pOocPHOXnEWz0jKhH6sm1LaXtoU,3405
-geoseeq/knex.py,sha256=tPYgb-V7dleI2pKjG3pIoeIE6X5XX50b2zKRqsPlN0s,6732
+geoseeq/knex.py,sha256=6fPO8F8yxgBgBXZiliMJvYYjgf_16chfJPyWLe-kpPk,7898
 geoseeq/organization.py,sha256=a9xmGDE0tQsjPJfyFkYnWagxZ8xpdeckkwvkhH6LNIk,2462
 geoseeq/pipeline.py,sha256=89mhWaecsKnm6tyRkdkaVp4dmZh62_v42Ze0oXf8OTY,9873
-geoseeq/project.py,sha256=x93TIsaxlMSJYiQZUIKol0Edj5aEYFaESF30VP0hoKU,13659
+geoseeq/project.py,sha256=NylHnDY8yWP2cyj4eUuLDnu-65UfjD5ehABQFww7W9g,13660
 geoseeq/remote_object.py,sha256=6owZTIubA2wwbA4AiL0HdfWDMpZjOhUgqv_KxNG2XZg,6613
 geoseeq/sample.py,sha256=TRz3zqTX8cK4xIicbqLGS4hAmMfsnNhDBCcHqquKdLg,7069
 geoseeq/search.py,sha256=gawad6Cx5FxJBPlYkXWb-UKAO-UC0_yhvyU9Ca1kaNI,3388
 geoseeq/user.py,sha256=tol8i1UGLRrbMw5jeJDnna1ikRgrCDd50Jxz0a1lSgg,690
-geoseeq/utils.py,sha256=S5V4ybms-3SPQ6GRdCsKNli--yuzYuDVGBw02r4MJ-Q,2387
+geoseeq/utils.py,sha256=PDRiEQIZYTcfEV9AYvloQVvfqs5JaebcFZodAa2SUW8,3577
 geoseeq/work_orders.py,sha256=5uLVVfdKE8qh4gGaHkdBpXJGRTujuSg59knWCqEET4A,8071
 geoseeq/cli/__init__.py,sha256=4WnK87K5seRK3SGJAxNWnQTqyg5uBhdhrOrzB1D4b3M,24
 geoseeq/cli/constants.py,sha256=Do5AUf9lMO9_P8KpFJ3XwwFBAWsxSjZ6sx9_QEGyC_c,176
@@ -21,7 +21,7 @@ geoseeq/cli/detail.py,sha256=q8Suu-j2k18knfSVFG-SWWGNsKM-n8y9RMA3LcIIi9Y,4132
 geoseeq/cli/download.py,sha256=tOEy6zRWN_m8UBgkD2REFt7jqINSyA-o-w8eKACetdM,16212
 geoseeq/cli/fastq_utils.py,sha256=-bmeQLaiMBm57zWOF0R5OlWTU0_3sh1JBC1RYw2BOFM,3083
 geoseeq/cli/get_eula.py,sha256=79mbUwyiF7O1r0g6UTxG9kJGQEqKuH805E6eLkPC6Y4,997
-geoseeq/cli/main.py,sha256=JzvaWQRjS9bRjS4U7RSf9AXzYhLyzfVl_tEoWhEjYd4,2916
+geoseeq/cli/main.py,sha256=ZIitwb0FmonOAizsRum9NxB0vj7zq13v4qzaKR4_hzo,2908
 geoseeq/cli/manage.py,sha256=wGXAcVaXqE5JQEU8Jh6OlHr02nB396bpS_SFcOZdrEo,5929
 geoseeq/cli/progress_bar.py,sha256=p1Xl01nkYxSBZCB30ue2verIIi22W93m3ZAMAxipD0g,738
 geoseeq/cli/run.py,sha256=bx2AV6VIqOSTlxUda78xl0XxcZ8TXlQx02-e7iLQPwI,3838
@@ -30,11 +30,11 @@ geoseeq/cli/user.py,sha256=fARv_5vx-QYT765Hsjgwr6J5ddA_viCPQdv9iUoVX6w,925
 geoseeq/cli/utils.py,sha256=f0wX5-19uDrYZ8d-aBLplqfbGOkr5BH8x3AMSAyPCes,2873
 geoseeq/cli/view.py,sha256=P-o2YKBkTrPzSI-JOv7xROc63HLSUygZNZsjp9TGvSw,6783
 geoseeq/cli/shared_params/__init__.py,sha256=dfnfWjYIHyKkeewhCl4SzKA31bCQQNp31TOdAHwn4YY,255
-geoseeq/cli/shared_params/common_state.py,sha256=gK01o4AcVg8qrJ8mREX7TEoEfr6q59geRNYSHns1fvw,3534
+geoseeq/cli/shared_params/common_state.py,sha256=pZVaoJ4M4DFKF6Yfhqmj3TCjiezlKLsC8T-v58_rxNI,3540
 geoseeq/cli/shared_params/config.py,sha256=06KrZhC3zljveo_21YvaZPcKIzyDBGHT_Yr79prr3eE,1412
 geoseeq/cli/shared_params/id_handlers.py,sha256=rG6Wq2nYc0Pdu9MDNzV7PxiYj0lGHMRjSOyJKifpbGw,7195
 geoseeq/cli/shared_params/obj_getters.py,sha256=ZSkt6LnDkVFlNVYKgLrjzg60-6BthZMr3eeD3HNqzac,2741
-geoseeq/cli/shared_params/opts_and_args.py,sha256=HM-4NFodH7zkbyG7EAvazb5wu5gYXWVs9Oaqd2lsHfI,1580
+geoseeq/cli/shared_params/opts_and_args.py,sha256=6nytDMCcNqbIKZNiA4LfSPAKz7yImRc_w2qZkoPpIt8,1581
 geoseeq/cli/upload/__init__.py,sha256=Wf30XGLllFFnnfeOnpYsO3SXyaq8yclHcYxGUNdSh6o,562
 geoseeq/cli/upload/upload.py,sha256=Ikly-vfLzDXpaMpyFTim1CfgqNjtrnRQHgOMi_7JubU,6367
 geoseeq/cli/upload/upload_advanced.py,sha256=Jq5eGe-wOdrzxGWVwaFPg0BAJcW0YSx_eHEmYjJeKuA,3434
@@ -46,11 +46,11 @@ geoseeq/contrib/ncbi/bioproject.py,sha256=_oThTd_iLDOC8cLOlJKAatSr362OBYZCEV3Yrq
 geoseeq/contrib/ncbi/cli.py,sha256=j9zEcaZPTryK3a4xluRxigcJKDhRpRxbp3KZSx-Bfhk,2400
 geoseeq/contrib/ncbi/setup_logging.py,sha256=Tp1bY1U0f-o739aHpvVYriG2qdd1lFvCYBXZeXQgt-w,175
 geoseeq/id_constructors/__init__.py,sha256=w5E0PNQ9UuAxBeZbDI7KBnUoERd85gGz3nScz45bd2o,126
-geoseeq/id_constructors/from_blobs.py,sha256=KC1paQQTy8NnL1mW5c0waI8DKghanyPY4X12kncwgB4,5043
-geoseeq/id_constructors/from_ids.py,sha256=xFv_TeXpN03ajQTSUVeaiXQFoB5M_QIf0SlX09rW3sM,2916
-geoseeq/id_constructors/from_names.py,sha256=Ikx2nsjIt_7-v1_2zGZZdkCQwXv8faZjSAyws5aHTSI,4040
-geoseeq/id_constructors/from_uuids.py,sha256=eCK9GqAhBmmxd-aZFVtBO7QZq3e4UxRCJaBBS_sSOGQ,3150
-geoseeq/id_constructors/resolvers.py,sha256=zTp4uWFkThj4GhlPVnFTt7JQ7dmmUD9vRyIbTJpPcRU,2608
+geoseeq/id_constructors/from_blobs.py,sha256=uuFSG99_5R2JrN2rNj_vKWOT-I7h80y_w8ANSjawiSc,5177
+geoseeq/id_constructors/from_ids.py,sha256=zBAKTzv1ZY9kCKl1QBTWsKg610nCVQgJ0IA9c1umd40,3050
+geoseeq/id_constructors/from_names.py,sha256=RqgFjDsAwQcidMkZwX7oB00OvBAKTiilHYetTPogJ40,4174
+geoseeq/id_constructors/from_uuids.py,sha256=5NrQoRBNBfiB48SIB6QFZvO0lxNrxAHbu1MDkNRSu_4,3305
+geoseeq/id_constructors/resolvers.py,sha256=8hp5xJSCoZrAXtMT54Hp4okt63l909XqJU3IQx-VCgc,2676
 geoseeq/id_constructors/utils.py,sha256=CKlZHGMiqi1b6r1KtgD3czSAomH99Gdfx5ziqaahz-0,723
 geoseeq/plotting/__init__.py,sha256=RkGoXxgu7jEfK0B7NmdalPS2AbU7I7dZwDbi4rn9CKM,154
 geoseeq/plotting/constants.py,sha256=CGUlm8WAFG3YRKdicc9Rcy5hFxUdUm2RgK0iXZWLuX8,285
@@ -79,9 +79,9 @@ geoseeq/vc/vc_stub.py,sha256=IQr8dI0zsWKVAeY_5ybDD6n49_3othcgfHS3P0O9tuY,3110
 tests/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 tests/test_api_client.py,sha256=TS5njc5pcPP_Ycy-ljcfPVT1hQRBsFVdQ0lCqBmoesU,12810
 tests/test_plotting.py,sha256=TcTu-2ARr8sxZJ7wPQxmbs3-gHw7uRvsgrhhhg0qKik,784
-geoseeq-0.4.0.dist-info/LICENSE,sha256=IuhIl1XCxXLPLJT_coN1CNqQU4Khlq7x4IdW7ioOJD8,1067
-geoseeq-0.4.0.dist-info/METADATA,sha256=CwSWq3_hTaE08t8YThQSt8rmaVPJEbcdOaYCjqI7SHg,454
-geoseeq-0.4.0.dist-info/WHEEL,sha256=oiQVh_5PnQM0E3gPdiz09WCNmwiHDMaGer_elqB3coM,92
-geoseeq-0.4.0.dist-info/entry_points.txt,sha256=yF-6KDM8zXib4Al0qn49TX-qM7PUkWUIcYtsgt36rjM,45
-geoseeq-0.4.0.dist-info/top_level.txt,sha256=zZk7mmeaqAYqFJG8nq2DTgSQPbflRjJwkDIhNURPDEU,14
-geoseeq-0.4.0.dist-info/RECORD,,
+geoseeq-0.5.0.dist-info/LICENSE,sha256=IuhIl1XCxXLPLJT_coN1CNqQU4Khlq7x4IdW7ioOJD8,1067
+geoseeq-0.5.0.dist-info/METADATA,sha256=Ys96LvjvqsNyOfAgaHy4Y-RnN0qdc8UQ_VS0h89Icaw,454
+geoseeq-0.5.0.dist-info/WHEEL,sha256=oiQVh_5PnQM0E3gPdiz09WCNmwiHDMaGer_elqB3coM,92
+geoseeq-0.5.0.dist-info/entry_points.txt,sha256=yF-6KDM8zXib4Al0qn49TX-qM7PUkWUIcYtsgt36rjM,45
+geoseeq-0.5.0.dist-info/top_level.txt,sha256=zZk7mmeaqAYqFJG8nq2DTgSQPbflRjJwkDIhNURPDEU,14
+geoseeq-0.5.0.dist-info/RECORD,,