add cell to allow creation of output variable

notebooks/HASP/DataDiagnostic/DataDiagnostics.ipynb

@@ -152,17 +152,17 @@
    },
    "outputs": [],
    "source": [
-    "import matplotlib.pyplot as plt\n",
-    "import numpy as np\n",
     "from astropy.io import fits\n",
     "from astropy.table import vstack\n",
     "from astroquery.mast import Observations\n",
-    "import glob\n",
+    "\n",
     "import os\n",
+    "import glob\n",
     "import shutil\n",
+    "import numpy as np\n",
     "from pathlib import Path\n",
+    "import matplotlib.pyplot as plt\n",
     "%matplotlib widget\n",
-    "import io\n",
     "\n",
     "plt.rcParams['figure.figsize'] = 10, 6\n",
     "plt.style.use('seaborn-v0_8-colorblind')\n",
@@ -292,7 +292,7 @@
    },
    "outputs": [],
    "source": [
-    "output = io.StringIO()\n",
+    "%%capture output\n",
     "\n",
     "# Querying and downloading calibrated products\n",
     "query_ex1 = Observations.query_criteria(\n",
@@ -336,10 +336,17 @@
     ")\n",
     "\n",
     "# Organizing the files \n",
-    "consolidate_files(datadir_ex1)\n",
-    "\n",
+    "consolidate_files(datadir_ex1)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
     "with open('output.txt', 'a') as file:\n",
-    "    file.write(output.getvalue())"
+    "    file.write(output.stdout)"
    ]
   },
   {
@@ -753,12 +760,19 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "output = io.StringIO()\n",
-    "!swrapper -i ./12715/newcoadddata -o ./12715/newcoadddata/products -k\n",
+    "%%capture output\n",
     "\n",
-    "# Write the captured output to a file\n",
+    "!swrapper -i ./12715/newcoadddata -o ./12715/newcoadddata/products -k"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
     "with open('output.txt', 'a') as file:\n",
-    "    file.write(output.getvalue())"
+    "    file.write(output.stdout)"
    ]
   },
   {
@@ -911,7 +925,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "output = io.StringIO()\n",
+    "%%capture output\n",
     "\n",
     "# Querying and downloading calibrated products\n",
     "query_ex2 = Observations.query_criteria(\n",
@@ -959,10 +973,17 @@
     ")\n",
     "\n",
     "# Organizing the files \n",
-    "consolidate_files(datadir_ex2)\n",
-    "\n",
+    "consolidate_files(datadir_ex2)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
     "with open('output.txt', 'a') as file:\n",
-    "    file.write(output.getvalue())"
+    "    file.write(output.stdout)"
    ]
   },
   {
@@ -1143,16 +1164,23 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "output = io.StringIO()\n",
+    "%%capture output\n",
     "\n",
     "!swrapper -i ./16655/newcoadddata_p-0.05 -o ./16655/newcoadddata_p-0.05/products -k -t -999\n",
     "!swrapper -i ./16655/newcoadddata_p-0.025 -o ./16655/newcoadddata_p-0.025/products -k -t -999\n",
     "!swrapper -i ./16655/newcoadddata_p0.0 -o ./16655/newcoadddata_p0.0/products -k -t -999\n",
     "!swrapper -i ./16655/newcoadddata_p0.025 -o ./16655/newcoadddata_p0.025/products -k -t -999\n",
-    "!swrapper -i ./16655/newcoadddata_p0.05 -o ./16655/newcoadddata_p0.05/products -k -t -999\n",
-    "\n",
+    "!swrapper -i ./16655/newcoadddata_p0.05 -o ./16655/newcoadddata_p0.05/products -k -t -999"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
     "with open('output.txt', 'a') as file:\n",
-    "    file.write(output.getvalue())"
+    "    file.write(output.stdout)"
    ]
   },
   {
@@ -1296,7 +1324,7 @@
    },
    "outputs": [],
    "source": [
-    "output = io.StringIO()\n",
+    "%%capture output\n",
     "\n",
     "# Querying and downloading calibrated products\n",
     "query_ex3 = Observations.query_criteria(\n",
@@ -1342,10 +1370,17 @@
     ")\n",
     "\n",
     "# Organizing the files \n",
-    "consolidate_files(datadir_ex3)\n",
-    "\n",
+    "consolidate_files(datadir_ex3)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
     "with open('output.txt', 'a') as file:\n",
-    "    file.write(output.getvalue())"
+    "    file.write(output.stdout)"
    ]
   },
   {
@@ -1481,12 +1516,19 @@
    },
    "outputs": [],
    "source": [
-    "output = io.StringIO()\n",
-    "\n",
-    "!swrapper -i ./16196/ -o ./16196/products_nofluxfilter -t -999\n",
+    "%%capture output\n",
     "\n",
+    "!swrapper -i ./16196/ -o ./16196/products_nofluxfilter -t -999"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
     "with open('output.txt', 'a') as file:\n",
-    "    file.write(output.getvalue())"
+    "    file.write(output.stdout)"
    ]
   },
   {