Skip to content

Network check #97

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Merged
katia-tymofyeyeva merged 3 commits into from
Jan 21, 2026
Merged

Network check #97

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
3 commits
Select commit Hold shift + click to select a range
6e62569
Check whether ifg exclusions specified in my_sites
Sep 23, 2025
9459b3a
Dropped dates, ifgs, indices are no longer stored in MintPy cfg files…
Sep 24, 2025
57b62d8
Fixed remaining indices (e.g., ifgs_date[i,0] -> ifgs_date[i][0])
Oct 6, 2025
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
20 changes: 18 additions & 2 deletions methods/coseismic/Coseismic_Requirement_Validation.ipynb
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -288,9 +288,25 @@
},
"outputs": [],
"source": [
"command = 'smallbaselineApp.py ' + str(config_file) + ' --dostep modify_network'\n",
"# Formulate ifgramStack file\n",
"ifgramStack_file = os.path.join(mintpy_dir, 'inputs/ifgramStack.h5')\n",
"\n",
"# Modify network - base command\n",
"command = f\"modify_network.py {ifgramStack_file} -t {config_file}\"\n",
"\n",
"# Check whether exclusions specified in my_sites file\n",
"if site_info.get('ifgExcludePair') not in [None, 'auto', 'no']:\n",
" command += f\" --exclude-ifg {site_info.get('ifgExcludePair')}\"\n",
"\n",
"if site_info.get('ifgExcludeDate') not in [None, 'auto', 'no']:\n",
" command += f\" --exclude-date {site_info.get('ifgExcludeDate')}\"\n",
"\n",
"if site_info.get('ifgExcludeIndex') not in [None, 'auto', 'no']:\n",
" command += f\" --exclude-ifg-index {site_info.get('ifgExcludeIndex')} \"\n",
"\n",
"# Run command\n",
"process = subprocess.run(command, shell=True)\n",
"plot_network.main(['inputs/ifgramStack.h5'])"
"plot_network.main([ifgramStack_file])"
]
},
{
Expand Down
22 changes: 19 additions & 3 deletions methods/secular/Secular_Requirement_Validation.ipynb
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -150,7 +150,7 @@
"aria_gunw_version = \"3_0_1\"\n",
"\n",
"rundate = \"20250826\" # Date of this Cal/Val run\n",
"version = \"1\" # Version of this Cal/Val run\n",
"version = \"1b\" # Version of this Cal/Val run\n",
"custom_sites = \"/home/jovyan/my_sites.txt\" # Path to custom site metadata\n",
"\n",
"# === Username Detection / Creation ===\n",
Expand Down Expand Up @@ -287,9 +287,25 @@
},
"outputs": [],
"source": [
"command = 'smallbaselineApp.py ' + str(config_file) + ' --dostep modify_network'\n",
"# Formulate ifgramStack file\n",
"ifgramStack_file = os.path.join(mintpy_dir, 'inputs/ifgramStack.h5')\n",
"\n",
"# Modify network - base command\n",
"command = f\"modify_network.py {ifgramStack_file} -t {config_file}\"\n",
"\n",
"# Check whether exclusions specified in my_sites file\n",
"if site_info.get('ifgExcludePair') not in [None, 'auto', 'no']:\n",
" command += f\" --exclude-ifg {site_info.get('ifgExcludePair')}\"\n",
"\n",
"if site_info.get('ifgExcludeDate') not in [None, 'auto', 'no']:\n",
" command += f\" --exclude-date {site_info.get('ifgExcludeDate')}\"\n",
"\n",
"if site_info.get('ifgExcludeIndex') not in [None, 'auto', 'no']:\n",
" command += f\" --exclude-ifg-index {site_info.get('ifgExcludeIndex')} \"\n",
"\n",
"# Run command\n",
"process = subprocess.run(command, shell=True)\n",
"plot_network.main(['inputs/ifgramStack.h5'])"
"plot_network.main([ifgramStack_file])"
]
},
{
Expand Down
98 changes: 65 additions & 33 deletions methods/transient/Transient_Requirement_Validation.ipynb
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -111,7 +111,7 @@
"from matplotlib import pyplot as plt\n",
"from mintpy import smallbaselineApp\n",
"from mintpy.objects import gnss\n",
"from mintpy.utils import readfile, utils as ut\n",
"from mintpy.utils import readfile, utils as ut, network\n",
"from mintpy.cli import view\n",
"\n",
"from solid_utils.sampling import load_geo, samp_pair\n",
Expand All @@ -138,13 +138,13 @@
"outputs": [],
"source": [
"# === Basic Configuration ===\n",
"site = \"CalVal_S1_LosAngelesA64\"\n",
"site = \"test\"\n",
"requirement = \"Transient\"\n",
"dataset = 'ARIA_S1_new' # For Sentinel-1 testing with aria-tools\n",
"aria_gunw_version = \"3_0_1\"\n",
"\n",
"rundate = \"20250820\" # Date of this Cal/Val run\n",
"version = \"1\" # Version of this Cal/Val run\n",
"rundate = \"20250826\" # Date of this Cal/Val run\n",
"version = \"1b\" # Version of this Cal/Val run\n",
"custom_sites = \"/home/jovyan/my_sites.txt\" # Path to custom site metadata\n",
"\n",
"# === Username Detection / Creation ===\n",
Expand Down Expand Up @@ -278,6 +278,39 @@
"Load the date of interferograms into Python:"
]
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {},
"outputs": [],
"source": [
"# Formulate ifgramStack file\n",
"ifgramStack_file = os.path.join(mintpy_dir, 'inputs/ifgramStack.h5')\n",
"\n",
"# Modify network - base command\n",
"command = f\"modify_network.py {ifgramStack_file} -t {config_file} \"\n",
"\n",
"# Check whether exclusions specified in my_sites file\n",
"if site_info.get('ifgExcludePair') not in [None, 'auto', 'no']:\n",
" command += f\" --exclude-ifg {site_info.get('ifgExcludePair')}\"\n",
"\n",
"if site_info.get('ifgExcludeDate') not in [None, 'auto', 'no']:\n",
" command += f\" --exclude-date {site_info.get('ifgExcludeDate')}\"\n",
"\n",
"if site_info.get('ifgExcludeIndex') not in [None, 'auto', 'no']:\n",
" command += f\" --exclude-ifg-index {site_info.get('ifgExcludeIndex')} \"\n",
"\n",
"# Run command\n",
"process = subprocess.run(command, shell=True)"
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"Retrieve the valid date pairs."
]
},
{
"cell_type": "code",
"execution_count": null,
Expand All @@ -287,12 +320,12 @@
"outputs": [],
"source": [
"# Retrieve available interferogram date pairs\n",
"ifgs_date = readfile.read(ifgs_file,datasetName='date')[0]\n",
"ifgs_date = network.get_date12_list(ifgs_file, dropIfgram=True)\n",
"\n",
"# Report all available date pairs\n",
"print(f\"Total {len(ifgs_date)} interferograms available\")\n",
"for pair in ifgs_date:\n",
" print(f\"{pair[0].decode()}-{pair[1].decode()}\")"
" print(f\"{'-'.join(pair.split('_'))}\")"
]
},
{
Expand All @@ -305,9 +338,8 @@
"source": [
"# Format date strings into Python datetime objects\n",
"_ifgs_date = np.empty_like(ifgs_date, dtype=dt)\n",
"for i in range(ifgs_date.shape[0]):\n",
" start_date = ifgs_date[i,0].decode()\n",
" end_date = ifgs_date[i,1].decode()\n",
"for i, pair in enumerate(ifgs_date):\n",
" start_date, end_date = pair.split(\"_\")\n",
" start_date = dt.strptime(start_date, \"%Y%m%d\")\n",
" end_date = dt.strptime(end_date, \"%Y%m%d\")\n",
" _ifgs_date[i] = [start_date, end_date]\n",
Expand Down Expand Up @@ -337,11 +369,11 @@
"# Determine which interferograms to exclude based on 12-day criterion\n",
"del_row_index = []\n",
"for i in range(ifgs_date.shape[0]):\n",
" time_interval = (ifgs_date[i,1]-ifgs_date[i,0]).days\n",
" time_interval = (ifgs_date[i][1]-ifgs_date[i][0]).days\n",
" if time_interval != 12:\n",
" del_row_index.append(i)\n",
"while i<ifgs_date.shape[0]-1:\n",
" if ifgs_date[i,1]==ifgs_date[i+1,0]:\n",
" if ifgs_date[i][1]==ifgs_date[i+1][0]:\n",
" del_row_index.append(i+1)\n",
" i = i+2\n",
" else:\n",
Expand Down Expand Up @@ -375,7 +407,7 @@
"del_row_index = []\n",
"i = 0\n",
"while i<ifgs_date.shape[0]-1:\n",
" if ifgs_date[i,1]==ifgs_date[i+1,0]:\n",
" if ifgs_date[i][1]==ifgs_date[i+1][0]:\n",
" del_row_index.append(i+1)\n",
" i = i+2\n",
" else:\n",
Expand Down Expand Up @@ -867,8 +899,8 @@
"E = W+lon_step*(width-1)\n",
"\n",
"# Temporal metadata\n",
"start_date_gnss = ifgs_date[0,0]\n",
"end_date_gnss = ifgs_date[-1,-1]"
"start_date_gnss = ifgs_date[0][0]\n",
"end_date_gnss = ifgs_date[-1][-1]"
]
},
{
Expand Down Expand Up @@ -966,8 +998,8 @@
" # Count number of dates in time range by looping through interferograms\n",
" for ifg_ndx in range(insar_displacement.shape[0]):\n",
" # Days in interferogram range (should be 12 based on above filtering)\n",
" start_date = ifgs_date[ifg_ndx,0]\n",
" end_date = ifgs_date[ifg_ndx,-1]\n",
" start_date = ifgs_date[ifg_ndx][0]\n",
" end_date = ifgs_date[ifg_ndx][-1]\n",
" range_days = (end_date - start_date).days\n",
"\n",
" # Count number of GNSS epochs in IFG date range\n",
Expand Down Expand Up @@ -1203,7 +1235,7 @@
" img1 = ax.imshow(insar_displacement[ifg_ndx],\n",
" cmap=cmap_obj, vmin=vmin, vmax=vmax, interpolation='nearest',\n",
" extent=(W, E, S, N))\n",
" ax.set_title(f\"{ifgs_date[ifg_ndx,0].strftime('%Y%m%d')}-{ifgs_date[ifg_ndx,1].strftime('%Y%m%d')}\")\n",
" ax.set_title(f\"{ifgs_date[ifg_ndx][0].strftime('%Y%m%d')}-{ifgs_date[ifg_ndx][1].strftime('%Y%m%d')}\")\n",
" cbar1 = fig.colorbar(img1, ax=ax, orientation='horizontal')\n",
" cbar1.set_label('LOS displacement [mm]')\n",
"\n",
Expand Down Expand Up @@ -1333,8 +1365,8 @@
"site_loc = sitedata['sites'][site]['calval_location']\n",
"for ifg_ndx in displacement.index.get_level_values(0).unique():\n",
" # Start and end dates as strings\n",
" start_date = ifgs_date[ifg_ndx,0].strftime('%Y%m%d')\n",
" end_date = ifgs_date[ifg_ndx,1].strftime('%Y%m%d')\n",
" start_date = ifgs_date[ifg_ndx][0].strftime('%Y%m%d')\n",
" end_date = ifgs_date[ifg_ndx][1].strftime('%Y%m%d')\n",
"\n",
" # Validation figure and assessment\n",
" _, validation_fig_method1 = display_transient_validation(ddiff_dist[ifg_ndx], abs_ddiff_disp[ifg_ndx],\n",
Expand Down Expand Up @@ -1486,7 +1518,7 @@
"\n",
"index = []\n",
"for i in range(len(ifgs_date_ap1)):\n",
" index.append(ifgs_date_ap1[i,0].strftime('%Y%m%d')+'-'+ifgs_date_ap1[i,1].strftime('%Y%m%d'))\n",
" index.append(ifgs_date_ap1[i][0].strftime('%Y%m%d')+'-'+ifgs_date_ap1[i][1].strftime('%Y%m%d'))\n",
"\n",
"n_all_pd = pd.DataFrame(n_all,columns=columns,index=index)\n",
"n_pass_pd = pd.DataFrame(n_pass,columns=columns,index=index)\n",
Expand Down Expand Up @@ -1729,7 +1761,7 @@
" fig, ax = plt.subplots(figsize=[18, 5.5])\n",
" img1 = ax.imshow(insar_coherence[ifg_ndx], cmap=cmap_obj, interpolation='nearest', extent=(W, E, S, N))\n",
" ax.set_title(f\"Coherence \"\n",
" f\"\\n Date range {ifgs_date[ifg_ndx,0].strftime('%Y%m%d')}-{ifgs_date[ifg_ndx,1].strftime('%Y%m%d')}\")\n",
" f\"\\n Date range {ifgs_date[ifg_ndx][0].strftime('%Y%m%d')}-{ifgs_date[ifg_ndx][1].strftime('%Y%m%d')}\")\n",
" cbar1 = fig.colorbar(img1, ax=ax)\n",
" cbar1.set_label('coherence')"
]
Expand All @@ -1748,7 +1780,7 @@
" fig, ax = plt.subplots(figsize=[18, 5.5])\n",
" img1 = ax.imshow(insar_displacement[ifg_ndx], cmap=cmap_obj, interpolation='nearest', extent=(W, E, S, N))\n",
" ax.set_title(f\"Interferogram \"\n",
" f\"\\n Date range {ifgs_date[i,0].strftime('%Y%m%d')}-{ifgs_date[i,1].strftime('%Y%m%d')}\")\n",
" f\"\\n Date range {ifgs_date[i][0].strftime('%Y%m%d')}-{ifgs_date[i][1].strftime('%Y%m%d')}\")\n",
" cbar1 = fig.colorbar(img1, ax=ax)\n",
" cbar1.set_label('LOS displacement [mm]')"
]
Expand Down Expand Up @@ -1821,7 +1853,7 @@
" fig, ax = plt.subplots(figsize=[18, 5.5])\n",
" img1 = ax.hist(dist[ifg_ndx], bins=100)\n",
" ax.set_title(f\"Histogram of distance \"\n",
" f\"\\n Date range {ifgs_date[ifg_ndx,0].strftime('%Y%m%d')}-{ifgs_date[ifg_ndx,1].strftime('%Y%m%d')}\")\n",
" f\"\\n Date range {ifgs_date[ifg_ndx][0].strftime('%Y%m%d')}-{ifgs_date[ifg_ndx][1].strftime('%Y%m%d')}\")\n",
" ax.set_xlabel(r'Distance ($km$)')\n",
" ax.set_ylabel('Frequency')\n",
" ax.set_xlim(0, 50)"
Expand All @@ -1840,7 +1872,7 @@
" fig, ax = plt.subplots(figsize=[18, 5.5])\n",
" img1 = ax.hist(rel_measure[ifg_ndx], bins=100)\n",
" ax.set_title(f\"Histogram of Relative Measurement \"\n",
" f\"\\n Date range {ifgs_date[ifg_ndx,0].strftime('%Y%m%d')}-{ifgs_date[ifg_ndx,1].strftime('%Y%m%d')}\")\n",
" f\"\\n Date range {ifgs_date[ifg_ndx][0].strftime('%Y%m%d')}-{ifgs_date[ifg_ndx][1].strftime('%Y%m%d')}\")\n",
" ax.set_xlabel(r'Relative Measurement ($mm$)')\n",
" ax.set_ylabel('Frequency')"
]
Expand Down Expand Up @@ -1963,8 +1995,8 @@
"method2_validation_figs = []\n",
"for ifg_ndx in displacement.index.get_level_values(0).unique():\n",
" # Start and end dates as strings\n",
" start_date = ifgs_date[ifg_ndx,0].strftime('%Y%m%d')\n",
" end_date = ifgs_date[ifg_ndx,1].strftime('%Y%m%d')\n",
" start_date = ifgs_date[ifg_ndx][0].strftime('%Y%m%d')\n",
" end_date = ifgs_date[ifg_ndx][1].strftime('%Y%m%d')\n",
"\n",
" # Validation figure and assessment\n",
" _, validation_fig_method2 = display_transient_validation(dist[ifg_ndx], rel_measure[ifg_ndx],\n",
Expand Down Expand Up @@ -2017,7 +2049,7 @@
"\n",
"index = []\n",
"for i in range(len(ifgs_date)):\n",
" index.append(f\"{ifgs_date[i,0].strftime('%Y%m%d')}-{ifgs_date[i,1].strftime('%Y%m%d')}\")\n",
" index.append(f\"{ifgs_date[i][0].strftime('%Y%m%d')}-{ifgs_date[i][1].strftime('%Y%m%d')}\")\n",
"\n",
"n_all_pd = pd.DataFrame(n_all, columns=columns, index=index)\n",
"n_pass_pd = pd.DataFrame(n_pass, columns=columns, index=index)\n",
Expand Down Expand Up @@ -2196,7 +2228,7 @@
" # Format figure\n",
" plt.legend(loc='upper right')\n",
" plt.title(f\"Displacements \"\n",
" f\"\\n Date range {ifgs_date[ifg_ndx,0].strftime('%Y%m%d')}-{ifgs_date[ifg_ndx,1].strftime('%Y%m%d')} \"\n",
" f\"\\n Date range {ifgs_date[ifg_ndx][0].strftime('%Y%m%d')}-{ifgs_date[ifg_ndx][1].strftime('%Y%m%d')} \"\n",
" f\"\\n Number of station pairs used: {len(insar_disp[ifg_ndx])}\")\n",
" plt.xlabel('LOS Displacement (mm)')\n",
" plt.ylabel('Number of Station Pairs')\n",
Expand All @@ -2220,7 +2252,7 @@
" # Format figure\n",
" plt.legend(loc='upper right')\n",
" plt.title(f\"Residuals\"\n",
" f\"\\n Date range {ifgs_date[ifg_ndx,0].strftime('%Y%m%d')}-{ifgs_date[ifg_ndx,1].strftime('%Y%m%d')}\"\n",
" f\"\\n Date range {ifgs_date[ifg_ndx][0].strftime('%Y%m%d')}-{ifgs_date[ifg_ndx][1].strftime('%Y%m%d')}\"\n",
" f\"\\n Number of stations pairs used: {len(ddiff_disp[i])}\")\n",
" plt.xlabel('Displacement Residual (mm)')\n",
" plt.ylabel('N Stations')\n",
Expand Down Expand Up @@ -2250,7 +2282,7 @@
" plt.xlabel(\"Distance (km)\")\n",
" plt.ylabel(\"Amplitude of Displacement Residuals (mm)\")\n",
" plt.title(f\"Residuals \"\n",
" f\"\\n Date range {ifgs_date[ifg_ndx,0].strftime('%Y%m%d')}-{ifgs_date[ifg_ndx,1].strftime('%Y%m%d')} \"\n",
" f\"\\n Date range {ifgs_date[ifg_ndx][0].strftime('%Y%m%d')}-{ifgs_date[ifg_ndx][1].strftime('%Y%m%d')} \"\n",
" f\"\\n Number of stations pairs used: {len(ddiff_dist[ifg_ndx])}\")\n",
" plt.legend([\"Measurement\", \"Mission Reqiurement\"])\n",
" plt.show()"
Expand Down Expand Up @@ -2278,8 +2310,8 @@
"# Loop through interferograms\n",
"for ifg_ndx in range(insar_displacement.shape[0]):\n",
" # Define start and end dates\n",
" start_time_str = ifgs_date[ifg_ndx,0].strftime('%Y%m%d')\n",
" end_time_str = ifgs_date[ifg_ndx,1].strftime('%Y%m%d')\n",
" start_time_str = ifgs_date[ifg_ndx][0].strftime('%Y%m%d')\n",
" end_time_str = ifgs_date[ifg_ndx][1].strftime('%Y%m%d')\n",
"\n",
" # Loop through stations in IFG\n",
" for site_name in gnss_time_series[ifg_ndx].columns:\n",
Expand All @@ -2292,7 +2324,7 @@
" plt.figure(figsize=(15,5))\n",
"\n",
" # Plot time-series data\n",
" plt.scatter(pd.date_range(start=ifgs_date[ifg_ndx,0], end=ifgs_date[ifg_ndx,1]),series)\n",
" plt.scatter(pd.date_range(start=ifgs_date[ifg_ndx][0], end=ifgs_date[ifg_ndx][1]),series)\n",
"\n",
" # Foramt figure\n",
" plt.title(f\"station name: {site_name}\")\n",
Expand Down
7 changes: 2 additions & 5 deletions prep/ARIA_prep.ipynb
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -95,12 +95,12 @@
"source": [
"# === Basic Configuration ===\n",
"site = \"test\" # Cal/Val location ID\n",
"requirement = \"Secular\" # Options: 'Secular', 'Coseismic', 'Transient'\n",
"requirement = \"Coseismic\" # Options: 'Secular', 'Coseismic', 'Transient'\n",
"dataset = \"ARIA_S1_new\" # Dataset type: 'ARIA_S1', 'ARIA_S1_new'\n",
"aria_gunw_version = \"3_0_1\"\n",
"\n",
"rundate = \"20250826\" # Date of this Cal/Val run\n",
"version = \"1\" # Version of this Cal/Val run\n",
"version = \"1b\" # Version of this Cal/Val run\n",
"custom_sites = \"/home/jovyan/my_sites.txt\" # Path to custom site metadata\n",
"\n",
"# === Username Detection / Creation ===\n",
Expand Down Expand Up @@ -512,9 +512,6 @@
" \"mintpy.velocity.startDate\": site_info.get('download_start_date'),\n",
" \"mintpy.velocity.endDate\": site_info.get('download_end_date'),\n",
" \"mintpy.reference.lalo\": site_info.get('reference_lalo'),\n",
" \"mintpy.network.excludeDate12\": site_info.get('ifgExcludePair'),\n",
" \"mintpy.network.excludeDate\" : site_info.get('ifgExcludeDate'),\n",
" \"mintpy.network.excludeIfgIndex\" : site_info.get('ifgExcludeIndex'),\n",
"}\n",
"\n",
"# Write config dictionary to text file\n",
Expand Down