looper 1.6.0a1__tar.gz → 1.6.0a3__tar.gz

{looper-1.6.0a1/looper.egg-info → looper-1.6.0a3}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: looper
-Version: 1.6.0a1
+Version: 1.6.0a3
 Summary: A pipeline submission engine that parses sample inputs and submits pipelines for each sample.
 Home-page: https://github.com/pepkit/looper
 Author: Nathan Sheffield, Vince Reuter, Michal Stolarczyk, Johanna Klughammer, Andre Rendeiro
@@ -23,7 +23,7 @@ Requires-Dist: logmuse>=0.2.0
 Requires-Dist: pandas>=2.0.2
 Requires-Dist: pephubclient>=0.1.2
 Requires-Dist: peppy>=0.40.0.a4
-Requires-Dist: pipestat>=v0.6.0a9
+Requires-Dist: pipestat>=0.6.0a9
 Requires-Dist: pyyaml>=3.12
 Requires-Dist: rich>=9.10.0
 Requires-Dist: ubiquerg>=0.5.2

looper-1.6.0a3/looper/_version.py

@@ -0,0 +1 @@
+__version__ = "1.6.0a3"

{looper-1.6.0a1 → looper-1.6.0a3}/looper/cli_looper.py

@@ -495,6 +495,12 @@ def build_parser():
             help="Number of attributes to display",
             type=int,
         )
+        parser.add_argument(
+            "--commands",
+            action="version",
+            version="{}".format(" ".join(subparsers.choices.keys())),
+        )
+
         result.append(parser)
     return result
 

{looper-1.6.0a1 → looper-1.6.0a3}/looper/project.py

@@ -111,9 +111,7 @@ class Project(peppyProject):
         compute settings.
     """
 
-    def __init__(
-        self, cfg=None, amendments=None, divcfg_path=None, runp=False, **kwargs
-    ):
+    def __init__(self, cfg=None, amendments=None, divcfg_path=None, **kwargs):
         super(Project, self).__init__(cfg=cfg, amendments=amendments)
         prj_dict = kwargs.get("project_dict")
         pep_config = kwargs.get("pep_config", None)
@@ -122,7 +120,7 @@ class Project(peppyProject):
 
         # init project from pephub pep_config:
         if prj_dict is not None and cfg is None:
-            self.from_dict(prj_dict)
+            self._from_dict(prj_dict)
             self["_config_file"] = os.getcwd()  # for finding pipeline interface
             self["pep_config"] = pep_config
 
@@ -916,7 +914,7 @@ def make_set(items):
     try:
         # Check if user input single integer value for inclusion/exclusion criteria
         if len(items) == 1:
-            items = list(map(int, items))  # list(int(items[0]))
+            items = list(map(str, items))  # list(int(items[0]))
     except:
         if isinstance(items, str):
             items = [items]

{looper-1.6.0a1 → looper-1.6.0a3/looper.egg-info}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: looper
-Version: 1.6.0a1
+Version: 1.6.0a3
 Summary: A pipeline submission engine that parses sample inputs and submits pipelines for each sample.
 Home-page: https://github.com/pepkit/looper
 Author: Nathan Sheffield, Vince Reuter, Michal Stolarczyk, Johanna Klughammer, Andre Rendeiro
@@ -23,7 +23,7 @@ Requires-Dist: logmuse>=0.2.0
 Requires-Dist: pandas>=2.0.2
 Requires-Dist: pephubclient>=0.1.2
 Requires-Dist: peppy>=0.40.0.a4
-Requires-Dist: pipestat>=v0.6.0a9
+Requires-Dist: pipestat>=0.6.0a9
 Requires-Dist: pyyaml>=3.12
 Requires-Dist: rich>=9.10.0
 Requires-Dist: ubiquerg>=0.5.2

{looper-1.6.0a1 → looper-1.6.0a3}/looper.egg-info/requires.txt

@@ -6,7 +6,7 @@ logmuse>=0.2.0
 pandas>=2.0.2
 pephubclient>=0.1.2
 peppy>=0.40.0.a4
-pipestat>=v0.6.0a9
+pipestat>=0.6.0a9
 pyyaml>=3.12
 rich>=9.10.0
 ubiquerg>=0.5.2

{looper-1.6.0a1 → looper-1.6.0a3}/requirements/requirements-all.txt

@@ -6,7 +6,7 @@ logmuse>=0.2.0
 pandas>=2.0.2
 pephubclient>=0.1.2
 peppy>=0.40.0.a4
-pipestat>=v0.6.0a9
+pipestat>=0.6.0a9
 pyyaml>=3.12
 rich>=9.10.0
 ubiquerg>=0.5.2

looper-1.6.0a1/looper/_version.py

@@ -1 +0,0 @@
-__version__ = "1.6.0a1"