Fix skips in twopint_difference tests

tests/test_twopoint_difference.py

@@ -132,7 +132,6 @@ def test_5grps_cr2_nframe2(setup_cube):
     assert(np.array_equal([0, 4, 4, 0, 0], out_gdq[0, :, 100, 100]))
 
 
-@pytest.mark.xfail
 def test_4grps_twocrs_2nd_4th(setup_cube):
     ngroups = 4
     data, gdq, nframes, read_noise, rej_threshold = setup_cube(ngroups)
@@ -611,7 +610,7 @@ def test_6grps_satat6_crat1(setup_cube):
     assert (np.array_equal([0, DQFLAGS['JUMP_DET'], 0, 0, 0, DQFLAGS['SATURATED']], out_gdq[0, :, 100, 100]))
 
 
-@pytest.mark.xfail
+@pytest.mark.xfail()
 def test_6grps_satat6_crat1_flagadjpixels(setup_cube):
     ngroups = 6
     # crmag = 1000
@@ -1019,10 +1018,13 @@ def test_median_func():
     arr = np.zeros(4 * 2 * 2).reshape(4, 2, 2)
     arr[:, 0, 0] = np.array([-1., -2., np.nan, np.nan])
     assert calc_med_first_diffs(arr)[0, 0] == -1
-@pytest.mark.skip("Used for local testing")
-def test_sigma_clip():
+
+
+# TODO: The input data for this is missing, need to find it
+@pytest.mark.xfail(reason="Missing Input Data")
+def test_sigma_clip(tmp_path, data_path):
 #    hdul = fits.open('TSOjump_sc__refpix.fits')
-    hdul = fits.open('lrs_TSOjump_sigmaclip5_00_refpix.fits')
+    hdul = fits.open(data_path / 'lrs_TSOjump_sigmaclip5_00_refpix.fits')
     data = hdul['SCI'].data * 4.0
     gdq = hdul['GROUPDQ'].data
     indata = data[:53, :, :, :]
@@ -1038,9 +1040,10 @@ def test_sigma_clip():
              after_jump_flag_e2=0.0,
              after_jump_flag_n2=0,
              copy_arrs=True, minimum_groups=3, minimum_sigclip_groups=50,)
-    fits.writeto("outgdq.fits", gdq, overwrite=True)
-@pytest.mark.skip("Used for local testing")
-def test_first_grp_flag_issue():
+    fits.writeto(tmp_path / "outgdq.fits", gdq, overwrite=True)
+
+
+def test_first_grp_flag_issue(tmp_path):
     nints = 8
     nrows = 2
     ncols = 2
@@ -1059,9 +1062,10 @@ def test_first_grp_flag_issue():
                  after_jump_flag_e1=0.0, after_jump_flag_n1=0,
                  after_jump_flag_e2=0.0, after_jump_flag_n2=0,
                  copy_arrs=True, minimum_groups=3, minimum_sigclip_groups=50)
-    fits.writeto("outgdq.fits",gdq, overwrite=True)
-@pytest.mark.skip("Used for local testing")
-def test_5grp_TSO():
+    fits.writeto(tmp_path / "outgdq.fits",gdq, overwrite=True)
+
+
+def test_5grp_TSO(tmp_path):
     nints=20
     nrows = 2
     ncols = 2
@@ -1082,10 +1086,13 @@ def test_5grp_TSO():
                  after_jump_flag_e1=0.0, after_jump_flag_n1=0,
                  after_jump_flag_e2=0.0, after_jump_flag_n2=0,
                  copy_arrs=True, minimum_groups=3, minimum_sigclip_groups=5000)
-    fits.writeto("new_gdq.fits", gdq, overwrite=True)
-@pytest.mark.skip("Used for local testing")
-def test_5grp_realTSO():
-    hdul = fits.open("obs2508_cutout_jump.fits")
+    fits.writeto(tmp_path / "new_gdq.fits", gdq, overwrite=True)
+
+
+# TODO: The input data for this is missing, need to find it
+@pytest.mark.xfail(reason="Missing Input Data")
+def test_5grp_realTSO(tmp_path, data_path):
+    hdul = fits.open(data_path / "obs2508_cutout_jump.fits")
     gdq = hdul['groupdq'].data
     data = hdul['sci'].data
     readnoise = 25
@@ -1096,10 +1103,13 @@ def test_5grp_realTSO():
                  after_jump_flag_e1=0.0, after_jump_flag_n1=0,
                  after_jump_flag_e2=0.0, after_jump_flag_n2=0,
                  copy_arrs=True, minimum_groups=3, minimum_sigclip_groups=15000)
-    fits.writeto("new_gdq_cutout.fits", gdq, overwrite=True)
-@pytest.mark.skip("Used for local testing")
-def test_5grp_allTSO():
-    hdul = fits.open("obs2508_noshower_sigclip_base_00_dark_current.fits")
+    fits.writeto(tmp_path / "new_gdq_cutout.fits", gdq, overwrite=True)
+
+
+# TODO: The input data for this is missing, need to find it
+@pytest.mark.xfail(reason="Missing Input Data")
+def test_5grp_allTSO(tmp_path, data_path):
+    hdul = fits.open(data_path / "obs2508_noshower_sigclip_base_00_dark_current.fits")
     gdq = hdul['groupdq'].data
     data = hdul['sci'].data * 5.5
     readnoise = 5.5 * 6
@@ -1110,11 +1120,13 @@ def test_5grp_allTSO():
                  after_jump_flag_e1=0.0, after_jump_flag_n1=0,
                  after_jump_flag_e2=0.0, after_jump_flag_n2=0,
                  copy_arrs=True, minimum_groups=3, minimum_sigclip_groups=15000)
-    fits.writeto("new_no_sigma_clip_gdq.fits", gdq, overwrite=True)
+    fits.writeto(tmp_path / "new_no_sigma_clip_gdq.fits", gdq, overwrite=True)
+
 
-@pytest.mark.skip("Used for local testing")
-def test_1059():
-    hdul = fits.open("data/nircam_1059_00_dark_current.fits")
+# TODO: The input data for this is missing, need to find it
+@pytest.mark.xfail(reason="Missing Input Data")
+def test_1059(tmp_path, data_path):
+    hdul = fits.open(data_path / "nircam_1059_00_dark_current.fits")
     gdq = hdul['groupdq'].data
     data = hdul['sci'].data * 5.5
     readnoise = 5.5 * 6
@@ -1125,11 +1137,13 @@ def test_1059():
                  after_jump_flag_e1=0.0, after_jump_flag_n1=0,
                  after_jump_flag_e2=0.0, after_jump_flag_n2=0,
                  copy_arrs=True, minimum_groups=3, minimum_sigclip_groups=15000)
-    fits.writeto("new_no_sigma_clip_gdq.fits", gdq, overwrite=True)
+    fits.writeto(tmp_path / "new_no_sigma_clip_gdq.fits", gdq, overwrite=True)
+
 
-@pytest.mark.skip("Used for local testing")
-def test_1952():
-    hdul = fits.open("data/obs1952_sc_shower_00_dark_current.fits")
+# TODO: The input data for this is missing, need to find it
+@pytest.mark.xfail(reason="Missing Input Data")
+def test_1952(tmp_path, data_path):
+    hdul = fits.open(data_path / "obs1952_sc_shower_00_dark_current.fits")
     gdq = hdul['groupdq'].data
     data = hdul['sci'].data * 5.5
     readnoise = 5.5 * 6
@@ -1140,4 +1154,4 @@ def test_1952():
                  after_jump_flag_e1=100.0 * gain, after_jump_flag_n1=20/2.77,
                  after_jump_flag_e2=3000.0 * gain, after_jump_flag_n2=1000/2.77,
                  copy_arrs=True, minimum_groups=3, minimum_sigclip_groups=150)
-    fits.writeto("new_obs1952_gdq.fits", gdq, overwrite=True)
+    fits.writeto(tmp_path / "new_obs1952_gdq.fits", gdq, overwrite=True)