Merge pull request #1 from XinhuiLi/main

[WIP] Pydra AFNI Implementation

.gitattributes

@@ -1 +1 @@
-pydra/tasks/TODO/_version.py export-subst
+pydra/tasks/afni/_version.py export-subst

.github/workflows/pythonpackage.yml

@@ -8,7 +8,7 @@ name: Python package
 
 # Set once
 env:
-  SUBPACKAGE: TODO
+  SUBPACKAGE: afni
 
 on:
   push:

MANIFEST.in

@@ -1,2 +1,2 @@
 include versioneer.py
-include pydra/tasks/TODO/_version.py
+include pydra/tasks/afni/_version.py

pydra/tasks/TODO/__init__.py → pydra/tasks/afni/__init__.py

@@ -3,7 +3,7 @@
 imported.
 
 >>> import pydra.engine
->>> import pydra.tasks.TODO
+>>> import pydra.tasks.afni
 """
 from ._version import get_versions
 

pydra/tasks/TODO/utils/__init__.py → pydra/tasks/afni/utils/__init__.py

@@ -2,5 +2,5 @@
 This is a basic doctest demonstrating that subpackags can also be
 imported.
 
->>> import pydra.tasks.TODO.utils
+>>> import pydra.tasks.afni.utils
 """

setup.cfg

@@ -1,10 +1,10 @@
 [DEFAULT]
-subpackage = TODO
+subpackage = afni
 
 [metadata]
-author = TODO
-author_email = TODO
-description = TODO
+author = Nipype Developers
+author_email = [email protected]
+description = AFNI tasks for the Pydra dataflow engine
 long_description = file:README.md
 long_description_content_type = text/markdown; variant=CommonMark
 license = Apache License, 2.0

setup.py

@@ -4,7 +4,7 @@
 from setuptools import setup
 import versioneer
 
-SUBPACKAGE = "TODO"
+SUBPACKAGE = "afni"
 
 # Give setuptools a hint to complain if it's too old a version
 # 30.3.0 allows us to put most metadata in setup.cfg

specs/afni_preprocess_param.yml

@@ -0,0 +1,122 @@
+Automask:
+  -
+
+Bandpass:
+  -
+
+Despike:
+  -
+
+BlurInMask:
+  -
+
+Centrality:
+  -
+
+Seg:
+  -
+
+SkullStrip:
+  -
+
+DegreeCentrality:
+  -
+
+Retroicor:
+  -
+
+ECM:
+  -
+
+TNorm:
+  -
+
+OutlierCount:
+  -
+
+NetCorr:
+  -
+
+CommandLine:
+  -
+
+Qwarp:
+  -
+
+AFNIPythonCommand:
+  -
+
+AlignEpiAnatPy:
+  -
+
+TCorrelate:
+  -
+
+ClipLevel:
+  -
+
+LFCD:
+  -
+
+Maskave:
+  -
+
+Hist:
+  -
+
+AutoTLRC:
+  -
+
+AutoTcorrelate:
+  -
+
+AFNICommand:
+  -
+
+Allineate:
+  -
+
+ROIStats:
+  -
+
+TSmooth:
+  -
+
+Means:
+  -
+
+Volreg:
+  -
+
+Fourier:
+  -
+
+Fim:
+  -
+
+QwarpPlusMinus:
+  -
+
+TCorr1D:
+  -
+
+TProject:
+  -
+
+TCorrMap:
+  -
+
+BlurToFWHM:
+  -
+
+TShift:
+  -
+
+Warp:
+  -
+
+Detrend:
+  -
+
+QualityIndex:
+  -