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Improve variable legibility on the quick look plots #169

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Merged
MBARIMike merged 3 commits into from
May 7, 2026
Merged

Improve variable legibility on the quick look plots #169

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64d4b69
Increase font size for most y-axis labels.
MBARIMike May 6, 2026
dbe8760
Make y-axis labels larger, add short labels to bottom of plot areas.
MBARIMike May 6, 2026
ef885a8
Put transparent box behind black text to make readable in more situat…
MBARIMike May 6, 2026
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6 changes: 3 additions & 3 deletions .vscode/launch.json
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Original file line number Diff line number Diff line change
Expand Up @@ -491,7 +491,7 @@
// tethys CANON September 2012 (classic test case)
//"args": ["-v", "1", "--dlist", "tethys/missionlogs/2012/20120908_20120920.dlist"]
// ahi planktivore deployment April 2025 add --update_ssds_provenance
//"args": ["-v", "1", "--dlist", "ahi/missionlogs/2025/20250414_20250418.dlist", "--update_ssds_provenance"]
"args": ["-v", "1", "--dlist", "ahi/missionlogs/2025/20250414_20250418.dlist", "--update_ssds_provenance", "--force"]
// Test time range of DeploymentPlots with ahi planktivore deployment April 2025
//"args": ["-v", "1", "--auv_name", "ahi", "--start", "20250401", "--end", "20250501", "--update_ssds_provenance", "--force"]
// Test web page building with a short deployment
Expand All @@ -507,11 +507,11 @@
// Test --notify with no argument to a message to the Slack web hook in the LRAUV_NOTIFY environment variable
//"args": ["-v", "1", "--dlist", "ahi/missionlogs/2025/20251022_20251024.dlist", "--force", "--notify"]
// Test Sipper data presentation
//"args": ["-v", "1", "--dlist", "daphne/missionlogs/2026/20260316_20260318.dlist", "--force", "--notify"]
//"args": ["-v", "1", "--dlist", "daphne/missionlogs/2026/20260316_20260318.dlist", "--force", "--notify", "mccann@mbari.org"]
// Test ESP data presentation
//"args": ["-v", "1", "--dlist", "makai/missionlogs/2024/20240607_20240615.dlist", "--update_ssds_provenance", "--force", "--notify"]
// Test of using dotenv for command line execution and INFO log of provenance submission - short failed mission
"args": ["-v", "1", "--dlist", "daphne/missionlogs/2026/20260423_20260423.dlist", "--update_ssds_provenance", "--force"]
//"args": ["-v", "1", "--dlist", "daphne/missionlogs/2026/20260423_20260423.dlist", "--update_ssds_provenance", "--force"]

},

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150 changes: 138 additions & 12 deletions src/data/create_products.py
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Original file line number Diff line number Diff line change
Expand Up @@ -219,6 +219,66 @@ def __init__( # noqa: PLR0913
# Override labels for variables whose name is not a good y-axis label.
variable_display_names: dict[str, str] = {"density": "Sigma-t"} # noqa: RUF012

# Maps dataset variable name → short human-readable label for use in plots and UIs.
variable_short_labels: dict[str, str] = { # noqa: RUF012
# ── core oceanography ─────────────────────────────────────────────────
"density": "Density",
"ctd1_temperature": "Temperature",
"ctd2_temperature": "Temperature",
"ctd1_salinity": "Salinity",
"ctd2_salinity": "Salinity",
"isus_nitrate": "Nitrate",
"ctd1_oxygen_mll": "Oxygen",
"ctd2_oxygen_mll": "Oxygen",
# ── HS2 backscatter / fluorescence ────────────────────────────────────
"hs2_bbp420": "Backscatter 420nm",
"hs2_bbp470": "Backscatter 470nm",
"hs2_bbp676": "Backscatter 676nm",
"hs2_bbp700": "Backscatter 700nm",
"hs2_fl676": "Fluorescence 676nm",
"hs2_fl700": "Fluorescence 700nm",
"ecopuck_chla": "Chlorophyll",
# ── bioluminescence (Dorado) ───────────────────────────────────────────
"biolume_flow": "Flow",
"biolume_avg_biolume": "Bioluminescence",
"biolume_intflash": "Integrated Flash",
"biolume_bg_biolume": "Background Biolum.",
"biolume_nbflash_high": "High Flash Count",
"biolume_nbflash_low": "Low Flash Count",
"biolume_proxy_diatoms": "Diatom Proxy",
"biolume_proxy_adinos": "A-Dino Proxy",
"biolume_proxy_hdinos": "H-Dino Proxy",
# ── LRAUV CTD Seabird ─────────────────────────────────────────────────
"ctdseabird_sea_water_temperature": "Temperature",
"ctdseabird_sea_water_salinity": "Salinity",
"ctdseabird_mass_concentration_of_oxygen_in_sea_water": "Oxygen",
# ── LRAUV other ───────────────────────────────────────────────────────
"onboard_platform_average_current": "Current",
"bpc1_platform_battery_charge": "Battery",
"universals_platform_pitch_angle": "Pitch",
# ── LRAUV WetLabs BB2FL ───────────────────────────────────────────────
"wetlabsbb2fl_particulatebackscatteringcoeff470nm": "Backscatter 470nm",
"wetlabsbb2fl_particulatebackscatteringcoeff650nm": "Backscatter 650nm",
"wetlabsbb2fl_mass_concentration_of_chlorophyll_in_sea_water": "Chlorophyll",
# ── LRAUV UBAT bioluminescence ────────────────────────────────────────
"wetlabsubat_flow_rate": "Flow",
"wetlabsubat_flow": "Flow",
"wetlabsubat_average_bioluminescence": "Bioluminescence",
"wetlabsubat_intflash": "Integrated Flash",
"wetlabsubat_bg_biolume": "Background Biolum.",
"wetlabsubat_nbflash_high": "High Flash Count",
"wetlabsubat_nbflash_low": "Low Flash Count",
"wetlabsubat_proxy_diatoms": "Diatom Proxy",
"wetlabsubat_proxy_adinos": "A-Dino Proxy",
"wetlabsubat_proxy_hdinos": "H-Dino Proxy",
# ── Planktivore ───────────────────────────────────────────────────────
"backseat_planktivore_hm_avgrois": "HM Avg ROIS",
"backseat_planktivore_lm_avgrois": "LM Avg ROIS",
"backseat_planktivore_casetemp": "Case Temp",
"backseat_planktivore_casehumidity": "Case Humidity",
"backseat_planktivore_casepress": "Case Pressure",
}

# Fallback display metadata for variables that may be absent from the dataset
# or whose NetCDF attributes are missing. Each entry is (units, colormap).
variable_fallback_metadata: dict[str, tuple[str, str]] = { # noqa: RUF012
Expand Down Expand Up @@ -1617,14 +1677,36 @@ def _setup_no_data_axes( # noqa: PLR0913
cb = fig.colorbar(dummy_im, ax=curr_ax, pad=0.01)
cb.set_ticks([])

short_label = self.variable_short_labels.get(var, "")
if short_label:
curr_ax.text(
0.5,
0.02,
short_label,
transform=curr_ax.transAxes,
ha="center",
va="bottom",
fontsize=14,
color="black",
alpha=0.7,
zorder=10,
bbox={
"boxstyle": "round,pad=0.15",
"facecolor": "white",
"alpha": 0.7,
"edgecolor": "none",
},
)

fs = 7 if "particulatebackscatter" in var else (8 if scale == "log" else 9)
if scale == "log" and units:
cb.set_label(f"{long_name}\n[log10({units})]", fontsize=7)
cb.set_label(f"{long_name}\n[log10({units})]", fontsize=fs)
elif scale == "log":
cb.set_label(f"{long_name}\n[log10]", fontsize=7)
cb.set_label(f"{long_name}\n[log10]", fontsize=fs)
elif units:
cb.set_label(f"{long_name}\n[{units}]", fontsize=8)
cb.set_label(f"{long_name}\n[{units}]", fontsize=fs)
else:
cb.set_label(long_name, fontsize=8)
cb.set_label(long_name, fontsize=fs)

def _plot_var( # noqa: C901, PLR0912, PLR0913, PLR0915
self,
Expand Down Expand Up @@ -1872,14 +1954,36 @@ def _plot_var_scatter( # noqa: C901, PLR0912, PLR0913, PLR0915

long_name, units, _ = self._resolve_label(var)

short_label = self.variable_short_labels.get(var, "")
if short_label:
curr_ax.text(
0.5,
0.02,
short_label,
transform=curr_ax.transAxes,
ha="center",
va="bottom",
fontsize=14,
color="black",
alpha=0.7,
zorder=10,
bbox={
"boxstyle": "round,pad=0.15",
"facecolor": "white",
"alpha": 0.7,
"edgecolor": "none",
},
)

fs = 7 if "particulatebackscatter" in var else (8 if scale == "log" else 9)
if scale == "log" and units:
cb.set_label(f"{long_name}\n[log10({units})]", fontsize=7)
cb.set_label(f"{long_name}\n[log10({units})]", fontsize=fs)
elif scale == "log":
cb.set_label(f"{long_name}\n[log10]", fontsize=7)
cb.set_label(f"{long_name}\n[log10]", fontsize=fs)
elif units:
cb.set_label(f"{long_name}\n[{units}]", fontsize=8)
cb.set_label(f"{long_name}\n[{units}]", fontsize=fs)
else:
cb.set_label(long_name, fontsize=8)
cb.set_label(long_name, fontsize=fs)

# Add CTD label for density, temperature, and salinity plots
if best_ctd and (var == "density" or "_temperature" in var or "_salinity" in var):
Expand Down Expand Up @@ -2150,14 +2254,36 @@ def _plot_var_contour( # noqa: C901, PLR0912, PLR0913, PLR0915

long_name, units, _ = self._resolve_label(var)

short_label = self.variable_short_labels.get(var, "")
if short_label:
curr_ax.text(
0.5,
0.02,
short_label,
transform=curr_ax.transAxes,
ha="center",
va="bottom",
fontsize=14,
color="black",
alpha=0.7,
zorder=10,
bbox={
"boxstyle": "round,pad=0.15",
"facecolor": "white",
"alpha": 0.7,
"edgecolor": "none",
},
)

fs = 7 if "particulatebackscatter" in var else (8 if scale == "log" else 9)
if scale == "log" and units:
cb.set_label(f"{long_name}\n[log10({units})]", fontsize=7)
cb.set_label(f"{long_name}\n[log10({units})]", fontsize=fs)
elif scale == "log":
cb.set_label(f"{long_name}\n[log10]", fontsize=7)
cb.set_label(f"{long_name}\n[log10]", fontsize=fs)
elif units:
cb.set_label(f"{long_name}\n[{units}]", fontsize=8)
cb.set_label(f"{long_name}\n[{units}]", fontsize=fs)
else:
cb.set_label(long_name, fontsize=8)
cb.set_label(long_name, fontsize=fs)

# Add CTD label for density, temperature, and salinity plots
if best_ctd and (var == "density" or "_temperature" in var or "_salinity" in var):
Expand Down
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