Merge branch 'main' into dev/main

README.md

@@ -31,11 +31,9 @@ Currently, python>=3.10 is supported. We recommend creating a new conda environm
 conda create -n dacapo python=3.10
 ```
 
-Then clone this repository, go into the directory, and install:
+Then install DaCapo using pip with the following command:
 ```
-git clone [email protected]:janelia-cellmap/dacapo.git
-cd dacapo
-pip install .
+pip install git+https://github.com/janelia-cellmap/dacapo
 ```
 This will install the minimum required dependencies. 
 

dacapo/experiments/starts/cosem_start.py

@@ -7,21 +7,10 @@
 logger = logging.getLogger(__file__)
 
 
-def format_name(name):
-    if "/" in name:
-        run, criterion = name.split("/")
-        return run, criterion
-    else:
-        raise ValueError(
-            f"Invalid starter name format {name}. Must be in the format run/criterion"
-        )
-
-
 class CosemStart(Start):
     def __init__(self, start_config):
-        run, criterion = format_name(start_config.name)
-        self.name = start_config.name
-        super().__init__(run, criterion)
+        self.name = f"{self.run}/{self.criterion}"
+        super().__init__(start_config)
 
     def initialize_weights(self, model):
         from dacapo.store.create_store import create_weights_store

dacapo/experiments/starts/cosem_start_config.py

@@ -1,14 +1,13 @@
 import attr
 from .cosem_start import CosemStart
+from .start_config import StartConfig
 
 
 @attr.s
-class CosemStartConfig:
+class CosemStartConfig(StartConfig):
     """Starter for COSEM pretained models. This is a subclass of `StartConfig` and
     should be used to initialize the model with pretrained weights from a previous
     run.
     """
 
     start_type = CosemStart
-
-    name: str = attr.ib(metadata={"help_text": "The COSEM checkpoint name to use."})