junifer 0.0.5.dev110__py3-none-any.whl → 0.0.5.dev131__py3-none-any.whl

junifer/markers/reho/reho_spheres.py

@@ -48,7 +48,7 @@ class ReHoSpheres(ReHoBase):
             Number of voxels in the neighbourhood, inclusive. Can be:
 
             - 7 : for facewise neighbours only
-            - 19 : for face- and edge-wise nieghbours
+            - 19 : for face- and edge-wise neighbours
             - 27 : for face-, edge-, and node-wise neighbors
 
         * ``neigh_rad`` : positive float, optional
@@ -78,7 +78,7 @@ class ReHoSpheres(ReHoBase):
             Number of voxels in the neighbourhood, inclusive. Can be:
 
             * 7 : for facewise neighbours only
-            * 19 : for face- and edge-wise nieghbours
+            * 19 : for face- and edge-wise neighbours
             * 27 : for face-, edge-, and node-wise neighbors
             * 125 : for 5x5 cuboidal volume
 

junifer/markers/tests/test_brainprint.py

@@ -0,0 +1,47 @@
+"""Provide tests for BrainPrint."""
+
+# Authors: Synchon Mandal <s.mandal@fz-juelich.de>
+# License: AGPL
+
+import socket
+
+import pytest
+
+from junifer.datagrabber import DataladAOMICID1000
+from junifer.datareader import DefaultDataReader
+from junifer.markers import BrainPrint
+from junifer.pipeline.utils import _check_freesurfer
+
+
+def test_get_output_type() -> None:
+    """Test BrainPrint get_output_type()."""
+    marker = BrainPrint()
+    assert marker.get_output_type("FreeSurfer") == "vector"
+
+
+def test_validate() -> None:
+    """Test BrainPrint validate()."""
+    marker = BrainPrint()
+    assert set(marker.validate(["FreeSurfer"])) == {"scalar_table", "vector"}
+
+
+@pytest.mark.skipif(
+    _check_freesurfer() is False, reason="requires FreeSurfer to be in PATH"
+)
+@pytest.mark.skipif(
+    socket.gethostname() != "juseless",
+    reason="only for juseless",
+)
+def test_compute() -> None:
+    """Test BrainPrint compute()."""
+    with DataladAOMICID1000(types="FreeSurfer") as dg:
+        # Fetch element
+        element = dg["sub-0001"]
+        # Fetch element data
+        element_data = DefaultDataReader().fit_transform(element)
+        # Initialize the marker
+        marker = BrainPrint()
+        # Compute the marker
+        feature_map = marker.fit_transform(element_data)
+        # Assert the output keys
+        assert {"eigenvalues", "areas", "volumes"} == set(feature_map.keys())

{junifer-0.0.5.dev110.dist-info → junifer-0.0.5.dev131.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: junifer
-Version: 0.0.5.dev110
+Version: 0.0.5.dev131
 Summary: JUelich NeuroImaging FEature extractoR
 Author-email: Fede Raimondo <f.raimondo@fz-juelich.de>, Synchon Mandal <s.mandal@fz-juelich.de>
 Maintainer-email: Fede Raimondo <f.raimondo@fz-juelich.de>, Synchon Mandal <s.mandal@fz-juelich.de>
@@ -41,6 +41,7 @@ Requires-Dist: h5py >=3.10
 Requires-Dist: httpx[http2] ==0.26.0
 Requires-Dist: tqdm ==4.66.1
 Requires-Dist: templateflow >=23.0.0
+Requires-Dist: lapy <2.0.0,>=1.0.0
 Requires-Dist: importlib-metadata ; python_version < "3.10"
 Requires-Dist: looseversion ==1.3.0 ; python_version >= "3.12"
 Provides-Extra: all

{junifer-0.0.5.dev110.dist-info → junifer-0.0.5.dev131.dist-info}/RECORD

@@ -1,5 +1,5 @@
 junifer/__init__.py,sha256=x1UR2jUcrUdm2HNl-3Qvyi4UUrU6ms5qm2qcmNY7zZk,391
-junifer/_version.py,sha256=0CYyZtK7X8YB7AsyaklZtJl2q0LTvCx3UPEiwmdAmQU,428
+junifer/_version.py,sha256=xJ0ry6UqPABBfQQRadaTablPb10PPmU0qhy9lgF2Fjo,428
 junifer/stats.py,sha256=jN22_qFvWYBU9ZIMnCSzN4iOscWnWrcrUPIdLeDkV64,6163
 junifer/api/__init__.py,sha256=pSj8V8tmwOAQ3sshWJfRfB-n3z5bcJj3pHOBX4-8ONc,251
 junifer/api/cli.py,sha256=53pews3mXkJ7DUDSkV51PbitYnuVAdQRkWG-gjO08Uw,16142
@@ -36,7 +36,7 @@ junifer/api/res/fsl/flirt,sha256=tSjiUco8ui8AbHD7mTzChEwbR0Rf_4iJTgzYTPF_WuQ,42
 junifer/api/res/fsl/img2imgcoord,sha256=Zmaw3oJYrEltcXiPyEubXry9ppAq3SND52tdDWGgeZk,49
 junifer/api/res/fsl/run_fsl_docker.sh,sha256=mRLtZo0OgDwleoee2MG6rYI37HVuGNk9zOADwcl97RA,1122
 junifer/api/res/fsl/std2imgcoord,sha256=-X5wRH6XMl0yqnTACJX6MFhO8DFOEWg42MHRxGvimXg,49
-junifer/api/tests/test_api_utils.py,sha256=zDRQiqFOaoO02FpzJCxEbZvsP4u4__Yr25e5k5MJwuI,2713
+junifer/api/tests/test_api_utils.py,sha256=j_QLYRofctz3GP6_Zbz_ABpdiuXWAK9ue_AzP7Rxuu4,2745
 junifer/api/tests/test_cli.py,sha256=kyDu-51lBmIBlQ2MnmmecC3nENrQuZRpk0bCkAPqmWM,10969
 junifer/api/tests/test_functions.py,sha256=unLxIMwB3f7HF3ESq0JCfRaQhNB9Xj0JEi1OMkWsgtQ,17753
 junifer/api/tests/test_parser.py,sha256=eUz2JPVb0_cxvoeI1O_C5PMNs5v_lDzGsN6fV1VW5Eg,6109
@@ -86,7 +86,7 @@ junifer/data/masks/vickery-patil/CAT12_IXI555_MNI152_TMP_GS_GMprob0.2_clean_3mm.
 junifer/data/masks/vickery-patil/GMprob0.2_cortex_3mm_NA_rm.nii.gz,sha256=jfMe_4H9XEnArYms5bSQbqS2V1_HbLHTfI5amQa_Pes,8700
 junifer/data/tests/test_coordinates.py,sha256=BNkz9qFbnwAI0oVlIm_XrT-z4Vsia_rMtMVaoFXT6mU,4328
 junifer/data/tests/test_data_utils.py,sha256=_DaiC8K79gs9HFHxr-udNeE2YTM6JA0-1i-K2cqK9qA,1087
-junifer/data/tests/test_masks.py,sha256=wqmG7N8Fia2faFCAyqfX7WGs0gFAo5qXGKytv0KAgYA,15183
+junifer/data/tests/test_masks.py,sha256=qgrcBAX3oqrca8mKACDxdt_9sDXXUZIU8jTNDlJzLQU,15183
 junifer/data/tests/test_parcellations.py,sha256=ZEU1VHIK0AyxpclcJhG_0rQU0phaBU_dHP7Erfi3mN8,38222
 junifer/data/tests/test_template_spaces.py,sha256=PJulN7xHpAcSOTY-UzTG_WPywZEBSlAZGiNG4gzk1_8,3144
 junifer/datagrabber/__init__.py,sha256=fhHKsZyBeqCFJJMr53VF6EUkNrFuUZkNR8QZbaoHTNg,680
@@ -94,7 +94,7 @@ junifer/datagrabber/base.py,sha256=KgMSKfkwd4yLW4PhoJDoWMgcDkGmDoIs6jkgKyOJd9A,6
 junifer/datagrabber/datalad_base.py,sha256=gP-DsyCd2F8W-aF2PXOg99Ntp2bj8QEtb535y06q39o,11009
 junifer/datagrabber/dmcc13_benchmark.py,sha256=se9F6QVw9WX22MNld33OQv_BtdW-yPvXXu6kYykxLNw,12225
 junifer/datagrabber/multiple.py,sha256=eXQIsvSNvD8GuEITjMaMoi1GwoeyWXXbQMRi-f2qgc4,4923
-junifer/datagrabber/pattern.py,sha256=4OcGSCwBpeQOj6_YZohJjRFC_L69y7MAKsoE4-XO2So,15949
+junifer/datagrabber/pattern.py,sha256=xwemCi1zKwudlWe5G2mSkCe-OGTRgA3jgM2i8vXAjiM,15978
 junifer/datagrabber/pattern_datalad.py,sha256=R3LMeknT7tAXs2AN0XVPRf6tGkCMPgDfkNT2bfi7UNc,4526
 junifer/datagrabber/utils.py,sha256=2ujwltVc__qPJ2RwnEhSSoC_RkDchGEBNw7bC0a3bvk,9898
 junifer/datagrabber/aomic/__init__.py,sha256=R7yrRVBWsBW25CH0fw-KHpFwb_EC-MlPKDzssGfj5A0,281
@@ -119,6 +119,14 @@ junifer/datareader/__init__.py,sha256=_vtrLX_vxlHFD90gPa3gWnhTuvfWM7Uzyj6y8ZPaWm
 junifer/datareader/default.py,sha256=Md2q0hjoh454F-fmFFlyzwZMcu9vmFFT-akR42SSwUs,6711
 junifer/datareader/tests/test_default_reader.py,sha256=9dPZSkba1YQjFsA0XwdUbx5sq8DVIEZoy_WfMAcvRus,5220
 junifer/external/__init__.py,sha256=CBB7eQul2hf-WWwT_PYFV1MS9KkXlZBO7oQWWVLgB_I,110
+junifer/external/BrainPrint/brainprint/__init__.py,sha256=Q7EQjLww8j2LbxCySqYLtPK5giHEAWQ2Ae_wbcL3OY4,222
+junifer/external/BrainPrint/brainprint/_version.py,sha256=r5UsrV3x19TmOEVjh4xFs05U02B9phChpQuVsNRawgc,45
+junifer/external/BrainPrint/brainprint/asymmetry.py,sha256=jJLLq4KgaDWKplG_iYDbp2cRZDMbU8tYI3UHZY0UkPU,2997
+junifer/external/BrainPrint/brainprint/brainprint.py,sha256=7RhvB_zMUzTgFywD6ny7SkMj-POV4SsiCUkfUG-qYeo,14470
+junifer/external/BrainPrint/brainprint/surfaces.py,sha256=9viP_rK8-uLKQlXHqt_rGljjwnhq4ahOaRcGPy8vqGE,8051
+junifer/external/BrainPrint/brainprint/utils/__init__.py,sha256=71RI91jS3LTWno-1YnDvzXMaI8Ma3ghoGmtlCkKMTWk,24
+junifer/external/BrainPrint/brainprint/utils/_config.py,sha256=Y0fTctFt785--1wz9VbqSgIpz4kE3ptLKII9mP4jfz8,3619
+junifer/external/BrainPrint/brainprint/utils/utils.py,sha256=l9UeJJTs1awPee6Pe-RDuT67OSan3VfYuLaELeaJCzw,5420
 junifer/external/h5io/h5io/__init__.py,sha256=LG7ru_Rt3EOE2H4PGYfBhC12Iax3yeTquZkd8TICiKk,469
 junifer/external/h5io/h5io/_h5io.py,sha256=8dWZDYegoPcBkH_fHPdl0eXNWTaRdk9hfIQo8Mcegzo,28748
 junifer/external/h5io/h5io/_version.py,sha256=mFY0GwwuN-a3M8w93_mskS6GZIvv9SNdjLfJaWNsm-I,22
@@ -127,8 +135,9 @@ junifer/external/h5io/h5io/chunked_list.py,sha256=1Y5BbuWzurJlEFQzJNuDdC3fNZ39EN
 junifer/external/nilearn/__init__.py,sha256=a2Umwm3_WeqIC7DqPUmnUonYfX3LUdQ0ScDGZrNP6y4,180
 junifer/external/nilearn/junifer_nifti_spheres_masker.py,sha256=sA8fbdaTHk2omYidApNO1hN0ObwDJR_h26P9i3MhbvM,16274
 junifer/external/nilearn/tests/test_junifer_nifti_spheres_masker.py,sha256=qlMFWjo9y8mNLrdmN2qCEK6_nplASv2OlomSfTxDcuw,10370
-junifer/markers/__init__.py,sha256=LjrBMZtWB0LKOnEwiFV-qsWzGUH2ka84VwS0h7wF45U,769
+junifer/markers/__init__.py,sha256=JWc7xh6r2LqFaheaDGE-KyCLGGjREXqc5BSBZqmpR_E,804
 junifer/markers/base.py,sha256=Af8TyoNAIHWREZkIgi2su6PUqoloJXVGT-KW13WlWUM,6370
+junifer/markers/brainprint.py,sha256=at_MHm_GhWd_Ls4XQQihfD2_SF1SGH2rbyjDQbWniIA,21766
 junifer/markers/collection.py,sha256=iqxP4waKFLHj5vgIxdZFFv-zOtjmMEJE5rShf_0sVcs,5511
 junifer/markers/ets_rss.py,sha256=7fr6mmbMM5NKIDV6bUyyu-pwHJH56GwYv6oozK4EX6k,4557
 junifer/markers/parcel_aggregation.py,sha256=FECIPG7x8GXxbE2wNCqw6o1-630nlQxvm2YMkzb4HLs,8714
@@ -173,11 +182,11 @@ junifer/markers/functional_connectivity/tests/test_functional_connectivity_base.
 junifer/markers/functional_connectivity/tests/test_functional_connectivity_parcels.py,sha256=iV1HY2t0ywBjOn06SLBlfn3x2c3Yuopq8W4pPQyfdzQ,3096
 junifer/markers/functional_connectivity/tests/test_functional_connectivity_spheres.py,sha256=wMK5GVcRz68zsCPMtTXxoG7H68Ab8wk9_bsrcyRz1R4,5090
 junifer/markers/reho/__init__.py,sha256=9IfeAxKEVgMWbhud-8T54Le07I4pR6A29sMKeFtvEPg,189
-junifer/markers/reho/_afni_reho.py,sha256=YZQAG8iPPOqYWZgnzbySLFbRKadL5WUYfaPbWAWHzEk,6444
-junifer/markers/reho/_junifer_reho.py,sha256=oATv5cBbc42HdxpKbeokuflKYrx6vitqjiVfS_f4Ibs,9279
+junifer/markers/reho/_afni_reho.py,sha256=otk5Gk8Za6rfnk5CjnjHbxuuACQnpkc1K_nUK0SejfQ,6444
+junifer/markers/reho/_junifer_reho.py,sha256=5Y0E7-u7mxbA7iOdNXIsPdACtu4nI4Bjh6ucOgE9_lc,9279
 junifer/markers/reho/reho_base.py,sha256=04rQFivmeZx7EG9-fP00bp0rKruUAi8x_ngVoMSjSl4,4492
-junifer/markers/reho/reho_parcels.py,sha256=zOx6pYPqwNQ40H-0qZguWUTOGo9XQ1NLiA2OtSJn8LI,6142
-junifer/markers/reho/reho_spheres.py,sha256=xAnEVIV-5Hq9CbEkzcpoL2rlcU5SsifONib9BPJaVDA,6758
+junifer/markers/reho/reho_parcels.py,sha256=JZjMkRL7R615fu06hi7QHDwPoakqRjl0c8Zt-E7n7Sw,6142
+junifer/markers/reho/reho_spheres.py,sha256=00LuIJ_dOB6k3vAwBmwRsxIZMNTLMA19PXoJ6TsB1zw,6758
 junifer/markers/reho/tests/test_reho_parcels.py,sha256=v3s52rZPeSgspL2vECpUCBp4dSuFh5_NKeEfBA6QQt0,3889
 junifer/markers/reho/tests/test_reho_spheres.py,sha256=Gj-q2NajtYVRacvTsexxCyAQrpMWBQ-GbdXZpiDujIU,3803
 junifer/markers/temporal_snr/__init__.py,sha256=gyJPT19xuig-og0yuzZZeRC_zX4ondcLf-wNKFDaGvs,243
@@ -187,6 +196,7 @@ junifer/markers/temporal_snr/temporal_snr_spheres.py,sha256=VoxVA_b48Ppf7P6cxYq0
 junifer/markers/temporal_snr/tests/test_temporal_snr_base.py,sha256=KRln5ibLTJJQ_f3pnioATfwyhK5htGc2o2J7CPcoyfs,426
 junifer/markers/temporal_snr/tests/test_temporal_snr_parcels.py,sha256=a2EUGmAdyauFCxKnDxmr9vVguYLUfbxrzl8rExBnplk,1961
 junifer/markers/temporal_snr/tests/test_temporal_snr_spheres.py,sha256=VSc7CrN8iWsI7099REwlBIjeQ3BlmVdXWs56ZLfYGbI,2094
+junifer/markers/tests/test_brainprint.py,sha256=cNcd6lSvWLqFXMQdB6A3FY51Da3FLTs8d-AeTT471fw,1397
 junifer/markers/tests/test_collection.py,sha256=crFB7vjdkll9uuyQtKsTW6BlqSvvjfv5e6wxa8nkU-0,6812
 junifer/markers/tests/test_ets_rss.py,sha256=fjFOBBIG_vaNblyDFFYhoYc0asWS1rQR0B02Feb_8Vw,2448
 junifer/markers/tests/test_marker_utils.py,sha256=SR3ADWI3uGv4ozYqVu-rMZnJVqP6JnjLBgo6qUm16Wk,1478
@@ -253,10 +263,10 @@ junifer/utils/logging.py,sha256=furcU3XIUpUvnpe4PEwzWWIWgmH4j2ZA4MQdvSGWjj0,9216
 junifer/utils/tests/test_fs.py,sha256=WQS7cKlKEZ742CIuiOYYpueeAhY9PqlastfDVpVVtvE,923
 junifer/utils/tests/test_helpers.py,sha256=k5qqfxK8dFyuewTJyR1Qn6-nFaYNuVr0ysc18bfPjyU,929
 junifer/utils/tests/test_logging.py,sha256=l8oo-AiBV7H6_IzlsNcj__cLeZBUvgIGoaMszD9VaJg,7754
-junifer-0.0.5.dev110.dist-info/AUTHORS.rst,sha256=rmULKpchpSol4ExWFdm-qu4fkpSZPYqIESVJBZtGb6E,163
-junifer-0.0.5.dev110.dist-info/LICENSE.md,sha256=MqCnOBu8uXsEOzRZWh9EBVfVz-kE9NkXcLCrtGXo2yU,34354
-junifer-0.0.5.dev110.dist-info/METADATA,sha256=SgyLdexnard9sSn0O75ZjN0DxjMCQ8tElN68xB8KNtw,8235
-junifer-0.0.5.dev110.dist-info/WHEEL,sha256=GJ7t_kWBFywbagK5eo9IoUwLW6oyOeTKmQ-9iHFVNxQ,92
-junifer-0.0.5.dev110.dist-info/entry_points.txt,sha256=DxFvKq0pOqRunAK0FxwJcoDfV1-dZvsFDpD5HRqSDhw,48
-junifer-0.0.5.dev110.dist-info/top_level.txt,sha256=4bAq1R2QFQ4b3hohjys2JBvxrl0GKk5LNFzYvz9VGcA,8
-junifer-0.0.5.dev110.dist-info/RECORD,,
+junifer-0.0.5.dev131.dist-info/AUTHORS.rst,sha256=rmULKpchpSol4ExWFdm-qu4fkpSZPYqIESVJBZtGb6E,163
+junifer-0.0.5.dev131.dist-info/LICENSE.md,sha256=MqCnOBu8uXsEOzRZWh9EBVfVz-kE9NkXcLCrtGXo2yU,34354
+junifer-0.0.5.dev131.dist-info/METADATA,sha256=X2Z8pWnC9xNVhFFD_oPVV5x2RlKuD-VuVTLpNEvSD8w,8270
+junifer-0.0.5.dev131.dist-info/WHEEL,sha256=GJ7t_kWBFywbagK5eo9IoUwLW6oyOeTKmQ-9iHFVNxQ,92
+junifer-0.0.5.dev131.dist-info/entry_points.txt,sha256=DxFvKq0pOqRunAK0FxwJcoDfV1-dZvsFDpD5HRqSDhw,48
+junifer-0.0.5.dev131.dist-info/top_level.txt,sha256=4bAq1R2QFQ4b3hohjys2JBvxrl0GKk5LNFzYvz9VGcA,8
+junifer-0.0.5.dev131.dist-info/RECORD,,