Requirements edits. (#309)

* Requirements edits.

* Small changes to notebooks to trigger CI.

* Refactor command execution

---------

Co-authored-by: Hatice Karatay <[email protected]>

notebooks/ACS/acs_cte_forward_model/acs_cte_forward_model_example.ipynb

@@ -73,7 +73,7 @@
     "\n",
     "`$ conda update hstcal`\n",
     "\n",
-    "`$ conda update acstools`"
+    "`$ conda update acstools` "
    ]
   },
   {

notebooks/ACS/acs_cte_forward_model/requirements.txt

@@ -1,8 +1,8 @@
-acstools==3.5.0
-astropy==5.3.3
-astroquery==0.4.6
-matplotlib==3.7.0
-numpy==1.23.4
-photutils==1.6.0
-crds==11.17.7
-stsci.tools==4.1.0
+acstools>=3.7.2
+astropy>=5.3.3
+astroquery>=0.4.6
+matplotlib>=3.7.0
+numpy>=1.23.4
+photutils>=1.6.0
+crds>=11.17.7
+stsci.tools>=4.1.0

notebooks/ACS/acs_findsat_mrt/acs_findsat_mrt_example.ipynb

@@ -187,7 +187,7 @@
    "id": "bf3e40f2",
    "metadata": {},
    "source": [
-    "Below, we make a mask for bad pixels. We're ignoring cosmic rays here because routines to make them often partially (but not fully) mask trails. By default, any masked pixels are set to `NaN`."
+    "Below, we make a mask for bad pixels. We're ignoring cosmic rays here because routines to make them often partially (but not fully) mask trails. By default, any masked pixels are set to `NaN`. "
    ]
   },
   {

notebooks/ACS/acs_findsat_mrt/requirements.txt

@@ -1,7 +1,7 @@
-acstools>=3.7.0
+acstools>=3.7.2
 astropy>=5.3.4
 astroquery>=0.4.6
 matplotlib>=3.8.1
 numpy>=1.26.2
 scikit-image>=0.22.0
-photutils==1.12.0 # The drizzlepac needs deprecated methods such as DAOGroup.
+photutils>=1.12.0

notebooks/ACS/acs_sbc_dark_analysis/acs_sbc_dark_analysis.ipynb

@@ -51,7 +51,7 @@
     "\n",
     "#### 4. [Perform Photometry](#_photometry)\n",
     "\n",
-    "* Subtract dark current from science images using aperture photometry"
+    "* Subtract dark current from science images using aperture photometry."
    ]
   },
   {
@@ -541,8 +541,7 @@
     "drk_file = 'jcrx01iiq_raw.fits'\n",
     "new_file = 'dark1.fits'\n",
     "\n",
-    "os.system('cp {:} {:}'.format(flt_file, new_file))\n",
-    "\n",
+    "shutil.copy(flt_file, new_file)\n",
     "darkdat = fits.getdata(drk_file)\n",
     "exptime = fits.getval(drk_file, 'exptime', ext=0)\n",
     "\n",
@@ -562,8 +561,7 @@
     "drk_file = 'jcrx01iyq_raw.fits'\n",
     "new_file = 'dark2.fits'\n",
     "\n",
-    "os.system('cp {:} {:}'.format(flt_file, new_file))\n",
-    "\n",
+    "shutil.copy(flt_file, new_file)\n",
     "darkdat = fits.getdata(drk_file)\n",
     "exptime = fits.getval(drk_file, 'exptime', ext=0)\n",
     "\n",
@@ -742,13 +740,6 @@
     "<br></br>\n",
     "<br></br>"
    ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": []
   }
  ],
  "metadata": {
@@ -767,7 +758,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.12.4"
+   "version": "3.11.7"
   }
  },
  "nbformat": 4,

notebooks/ACS/acs_sbc_dark_analysis/requirements.txt

@@ -3,4 +3,4 @@ astroquery>=0.4.6
 drizzlepac>=3.5.1
 matplotlib>=3.7.0
 numpy>=1.23.4
-photutils==1.12.0  # The drizzlepac needs deprecated methods such as DAOGroup.
+photutils>=1.12.0  # The drizzlepac needs deprecated methods such as DAOGroup.

notebooks/ACS/acs_subarrays/acs_subarrays.ipynb

@@ -80,14 +80,15 @@
     "from astropy.table import Table\n",
     "\n",
     "from stwcs import updatewcs\n",
-    "from acstools import (acs_destripe_plus, utils_calib)"
+    "from acstools import (acs_destripe_plus, utils_calib)\n",
+    "from IPython.display import clear_output"
    ]
   },
   {
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "Here we set environment variables for later use with the Calibration Reference Data System (CRDS)."
+    "Here we set environment variables for later use with the Calibration Reference Data System (CRDS). "
    ]
   },
   {
@@ -311,8 +312,8 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "cmd_input = 'crds bestrefs --files {:} --sync-references=1 --update-bestrefs'.format(sbc_fits)\n",
-    "os.system(cmd_input)"
+    "!crds bestrefs --files {sbc_fits} --sync-references=1 --update-bestrefs\n",
+    "clear_output()"
    ]
   },
   {
@@ -373,8 +374,8 @@
    "outputs": [],
    "source": [
     "sbc_fits = 'j92sa0w6q_raw.fits'\n",
-    "cmd_input = 'crds bestrefs --files {:} --sync-references=1 --update-bestrefs'.format(sbc_fits)\n",
-    "os.system(cmd_input)"
+    "!crds bestrefs --files {sbc_fits} --sync-references=1 --update-bestrefs\n",
+    "clear_output()"
    ]
   },
   {
@@ -741,13 +742,6 @@
     "<br></br>\n",
     "<br></br>"
    ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": []
   }
  ],
  "metadata": {
@@ -766,7 +760,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.12.4"
+   "version": "3.11.7"
   }
  },
  "nbformat": 4,

notebooks/ACS/acs_subarrays/requirements.txt

@@ -1,4 +1,4 @@
-acstools>=3.5.0
+acstools>=3.7.2
 astropy>=5.3.3
 astroquery>=0.4.6
 stwcs>=1.7.2