nf-core · fabianegli · Nov 21, 2022 · Nov 21, 2022 · Nov 21, 2022 · Nov 21, 2022
diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -29,7 +29,7 @@
 - Bump promoted Python version from 3.7 to 3.8 ([#1971](https://github.com/nf-core/tools/pull/1971))
 - Fix incorrect file deletion in `nf-core launch` when `--params_in` has the same name as `--params_out`
 - Updated GitHub actions ([#1998](https://github.com/nf-core/tools/pull/1998), [#2001](https://github.com/nf-core/tools/pull/2001))
-- Code maintenance ([#1818](https://github.com/nf-core/tools/pull/1818))
+- Code maintenance ([#1818](https://github.com/nf-core/tools/pull/1818), [#2032](https://github.com/nf-core/tools/pull/2032))
 - Track from where modules and subworkflows are installed ([#1999](https://github.com/nf-core/tools/pull/1999))
 - Substitute ModulesCommand and SubworkflowsCommand by ComponentsCommand ([#2000](https://github.com/nf-core/tools/pull/2000))
 - Don't print source file + line number on logging messages (except when verbose) ([#2015](https://github.com/nf-core/tools/pull/2015))

diff --git a/nf_core/create.py b/nf_core/create.py
@@ -26,7 +26,7 @@
 log = logging.getLogger(__name__)
 
 
-class PipelineCreate(object):
+class PipelineCreate:
     """Creates a nf-core pipeline a la carte from the nf-core best-practice template.
 
     Args:

diff --git a/nf_core/download.py b/nf_core/download.py
@@ -64,7 +64,7 @@ def get_renderables(self):
             yield self.make_tasks_table([task])
 
 
-class DownloadWorkflow(object):
+class DownloadWorkflow:
     """Downloads a nf-core workflow from GitHub to the local file system.
 
     Can also download its Singularity container image if required.

diff --git a/nf_core/launch.py b/nf_core/launch.py
@@ -21,7 +21,7 @@
 log = logging.getLogger(__name__)
 
 
-class Launch(object):
+class Launch:
     """Class to hold config option to launch a pipeline"""
 
     def __init__(

diff --git a/nf_core/licences.py b/nf_core/licences.py
@@ -16,7 +16,7 @@
 log = logging.getLogger(__name__)
 
 
-class WorkflowLicences(object):
+class WorkflowLicences:
     """A nf-core workflow licenses collection.
 
     Tries to retrieve the license information from all dependencies

diff --git a/nf_core/list.py b/nf_core/list.py
@@ -73,7 +73,7 @@ def get_local_wf(workflow, revision=None):
     return local_wf.local_path
 
 
-class Workflows(object):
+class Workflows:
     """Workflow container class.
 
     Is used to collect local and remote nf-core pipelines. Pipelines
@@ -272,7 +272,7 @@ def print_json(self):
         )
 
 
-class RemoteWorkflow(object):
+class RemoteWorkflow:
     """A information container for a remote workflow.
 
     Args:
@@ -308,7 +308,7 @@ def __init__(self, data):
             )
 
 
-class LocalWorkflow(object):
+class LocalWorkflow:
     """Class to handle local workflows pulled by nextflow"""
 
     def __init__(self, name):

diff --git a/nf_core/modules/lint/__init__.py b/nf_core/modules/lint/__init__.py
@@ -35,7 +35,7 @@ class ModuleLintException(Exception):
     pass
 
 
-class LintResult(object):
+class LintResult:
     """An object to hold the results of a lint test"""
 
     def __init__(self, mod, lint_test, message, file_path):

diff --git a/nf_core/modules/modules_repo.py b/nf_core/modules/modules_repo.py
@@ -2,7 +2,6 @@
 import logging
 import os
 import shutil
-from importlib.resources import path
 from pathlib import Path
 
 import git
@@ -59,7 +58,7 @@ def update(self, op_code, cur_count, max_count=None, message=""):
         )
 
 
-class ModulesRepo(object):
+class ModulesRepo:
     """
     An object to store details about the repository being used for modules.
 

diff --git a/nf_core/modules/nfcore_module.py b/nf_core/modules/nfcore_module.py
@@ -4,7 +4,7 @@
 from pathlib import Path
 
 
-class NFCoreModule(object):
+class NFCoreModule:
     """
     A class to hold the information about a nf-core module
     Includes functionality for linting

diff --git a/nf_core/schema.py b/nf_core/schema.py
@@ -20,7 +20,7 @@
 log = logging.getLogger(__name__)
 
 
-class PipelineSchema(object):
+class PipelineSchema:
     """Class to generate a schema object with
     functions to handle pipeline JSON Schema"""
 

diff --git a/nf_core/sync.py b/nf_core/sync.py
@@ -33,7 +33,7 @@ class PullRequestException(Exception):
     pass
 
 
-class PipelineSync(object):
+class PipelineSync:
     """Object to hold syncing information and results.
 
     Args:

diff --git a/nf_core/utils.py b/nf_core/utils.py
@@ -89,7 +89,7 @@ def rich_force_colors():
     return None
 
 
-class Pipeline(object):
+class Pipeline:
     """Object to hold information about a local pipeline.
 
     Args:
-Original file line number
+Diff line change
@@ Expand Up / @@ -33,7 +33,7 @@ class PullRequestException(Exception): @@
         pass
-    class PipelineSync(object):
+    class PipelineSync:
         """Object to hold syncing information and results.
         Args:
@@ Expand Down @@