def save_json(self, name, blob):
sub_dir = ensure_sub_dir(self.data_dir, f"dataframes/")
filename = os.path.join(sub_dir, name)
json_obj = json.dumps(blob)
with open(filename, "w") as json_file:
json_file.write(json_obj)
def plot_activation_fns(self, act_fns):
"""
Plots the given activation functions on the same figure
"""
x = np.linspace(-5, 5, 50)
x = torch.tensor(x)
fig, ax = plt.subplots(figsize=(7, 5))
for fn in act_fns:
y = fn(x)
ax.plot(x, y, label=str(fn))
ax.legend()
# optional saving
if not self.save_fig:
print("Not saving.")
plt.show()
return
sub_dir = ensure_sub_dir(self.data_dir, f"figures/act_fns/")
fn_names = " & ".join([str(fn) for fn in act_fns])
filename = f"{fn_names}.png"
filename = os.path.join(sub_dir, filename)
print(f"Saving... {filename}")
plt.savefig(filename, dpi=300)
def plot_type_specific_weights(self, net_name, case):
"""
Plots mean absolute weights for each cell type across layers
"""
# pull data
df = self.stats_processor.load_weight_df(net_name, case)
# plot
state_keys = list(nets[net_name]["state_keys"].keys())
x = np.array([i * 1.25 for i in range(len(state_keys))])
n_act_fns = len(df.index.levels[1])
width = 1.0 / n_act_fns
err_kw = dict(lw=1, capsize=3, capthick=1)
fig, ax = plt.subplots(figsize=(14, 8))
clrs = sns.color_palette("hls", n_act_fns)
for i in range(n_act_fns):
act_fn = df.index.levels[1][i]
yvals = df["avg_weight"][:, act_fn][state_keys]
yerr = df["sem_weight"][:, act_fn][state_keys]
ax.bar(x,
yvals,
width,
yerr=yerr,
label=act_fn,
error_kw=err_kw,
color=clrs[i])
# update bar locations for next group
x = [loc + width for loc in x]
ax.set_title("Weight distribution across layers after training")
ax.set_xlabel("Layer")
ax.set_ylabel("Mean abs weight per layer")
ax.legend()
loc = (n_act_fns - 1) / (2. * n_act_fns)
ax.set_xticks([loc + i * 1.25 for i in range(len(state_keys))])
labels = list(nets[net_name]["state_keys"].values())
ax.set_xticklabels(labels)
# optional saving
if not self.save_fig:
print("Not saving.")
plt.show()
return
sub_dir = ensure_sub_dir(self.data_dir,
f"figures/{net_name}/weight distr/")
filename = f"{case} weight distr.png"
filename = os.path.join(sub_dir, filename)
print(f"Saving... {filename}")
plt.savefig(filename, dpi=300)
def save(self, sub_dir_name, filename):
if self.sub_dir_name is not None:
sub_dir_name = self.sub_dir_name
sub_dir = ensure_sub_dir(self.data_dir, f"figures/{sub_dir_name}")
filename = os.path.join(sub_dir, filename)
print(f"Saving... {filename}")
plt.savefig(f"{filename}.svg")
if self.save_png:
plt.savefig(f"{filename}.png", dpi=300)
def plot_activation_fns(self, act_fns, clr_set="husl"):
"""
Plots the given activation functions on the same figure
"""
x = np.linspace(-100, 100, 10000)
x = torch.tensor(x)
fig, ax = plt.subplots(figsize=(5, 5))
clrs = sns.color_palette(clr_set, len(act_fns))
for i in range(len(act_fns)):
fn = act_fns[i]
y = fn(x)
normalized = y / max(y)
label = str(fn)
ax.plot(x, y, label=label, c=clrs[i], linewidth=3)
# ax.plot(x, normalized, label=f"{str(fn)} norm")
# axes
ax.axhline(y=0, color="k", linestyle="--", alpha=0.2)
ax.axvline(x=0, color="k", linestyle="--", alpha=0.2)
ax.set_xticks([-1, 0, 1])
ax.set_xticklabels([-1, 0, 1])
ax.set_yticks([-1, 0, 1])
ax.set_yticklabels([-1, 0, 1])
ax.set_xlim([-2, 2])
ax.set_ylim([-1, 2])
# ax.axis("equal")
ax.set_aspect("equal", "box")
ax.set_xlabel("Input", fontsize=large_font_size)
ax.set_ylabel("Activation", fontsize=large_font_size)
ax.legend(fontsize=small_font_size, loc="upper left")
plt.tight_layout()
# optional saving
if not self.save_fig:
print("Not saving.")
plt.show()
return
sub_dir = ensure_sub_dir(self.data_dir, f"figures/act_fns/")
fn_names = " & ".join([str(fn) for fn in act_fns])
filename = f"{fn_names}"
print(f"Saving... {filename}")
plt.savefig(os.path.join(sub_dir, f"{filename}.svg"))
plt.savefig(os.path.join(sub_dir, f"{filename}.png"), dpi=300)
def plot_act_fn_mapping(self, act_fn1, act_fn2):
"""
Visualize the expressivity of mixed activation functions
"""
# plot input space
fig, ax = plt.subplots(figsize=(7, 5))
circle = plt.Circle((0, 0), 1, color="k", fill=False, linewidth=2)
ax.add_artist(circle)
ax.axis("equal")
ax.set(xlim=(-2, 2), ylim=(-2, 2))
ax.axvline(0, linestyle="--", alpha=0.25, color="k")
ax.axhline(0, linestyle="--", alpha=0.25, color="k")
# plt.savefig("unit_circle.svg")
# plot output space
fig, ax = plt.subplots(figsize=(7, 5))
ax.axis("equal")
ax.set(xlim=(-2, 2), ylim=(-2, 2))
ax.axvline(0, linestyle="--", alpha=0.25, color="k")
ax.axhline(0, linestyle="--", alpha=0.25, color="k")
x = np.arange(0, 2 * np.pi, 1 / 100)
x1 = torch.tensor(np.sin(x))
x2 = torch.tensor(np.cos(x))
ax.plot(x1, x2, "k:", linewidth=2, label="Input")
# output space
ax.plot(act_fn1(x1), act_fn1(x2), "b--", linewidth=2, label="act_fn1")
ax.plot(act_fn2(x1), act_fn2(x2), "g--", linewidth=2, label="act_fn2")
# mixed space
ax.plot(act_fn1(x1), act_fn2(x2), "r", linewidth=2, label="Mixed")
plt.legend()
# optional saving
if not self.save_fig:
print("Not saving.")
plt.show()
return
sub_dir = ensure_sub_dir(self.data_dir, f"figures/act_fns/")
fn_names = " & ".join([str(fn) for fn in act_fns])
filename = f"{fn_names}.svg"
filename = os.path.join(sub_dir, filename)
print(f"Saving... {filename}")
plt.savefig(filename, dpi=300)
class WeightVisualizer():
def __init__(self, data_dir, n_classes=10, save_fig=False):
self.data_dir = data_dir
self.save_fig = save_fig
self.stats_processor = StatsProcessor(data_dir, n_classes)
def plot_type_specific_weights(self, net_name, case):
"""
Plots mean absolute weights for each cell type across layers
"""
# pull data
df = self.stats_processor.load_weight_df(net_name, case)
# plot
state_keys = list(nets[net_name]["state_keys"].keys())
x = np.array([i * 1.25 for i in range(len(state_keys))])
n_act_fns = len(df.index.levels[1])
width = 1.0 / n_act_fns
err_kw = dict(lw=1, capsize=3, capthick=1)
fig, ax = plt.subplots(figsize=(14,8))
clrs = sns.color_palette("hls", n_act_fns)
for i in range(n_act_fns):
act_fn = df.index.levels[1][i]
yvals = df["avg_weight"][:, act_fn][state_keys]
yerr = df["sem_weight"][:, act_fn][state_keys]
ax.bar(x, yvals, width, yerr=yerr, label=act_fn, error_kw=err_kw,
color=clrs[i])
# update bar locations for next group
x = [loc + width for loc in x]
ax.set_title("Weight distribution across layers after training")
ax.set_xlabel("Layer")
ax.set_ylabel("Mean abs weight per layer")
ax.legend()
loc = (n_act_fns - 1) / (2. * n_act_fns)
ax.set_xticks([loc + i * 1.25 for i in range(len(state_keys))])
labels = list(nets[net_name]["state_keys"].values())
ax.set_xticklabels(labels)
# optional saving
if not self.save_fig:
print("Not saving.")
plt.show()
return
sub_dir = ensure_sub_dir(self.data_dir, f"figures/{net_name}/weight distr/")
filename = f"{case} weight distr.svg"
filename = os.path.join(sub_dir, filename)
print(f"Saving... {filename}")
plt.savefig(filename, dpi=300)
def plot_weight_changes(self, net_name, cases, train_schemes):
"""
Plots average change in weights over training for the given
experimental cases.
Args:
cases (list): Experimental cases to include in figure.
Returns:
None.
"""
# pull data
df = self.stats_processor.load_weight_change_df(net_name, cases, train_schemes)
state_keys = df.columns.to_list()
sem_cols = list(filter(lambda x: x.endswith(".sem"), df.columns))
df_groups = df.groupby(["train_scheme", "case"])
# plot
x = np.array([i * 1.25 for i in range(len(state_keys))])
width = 1.0 / len(cases)
err_kw = dict(lw=1, capsize=3, capthick=1)
fig, ax = plt.subplots(figsize=(14,8))
clrs = sns.color_palette("hls", len(cases))
for i in range(len(cases)):
case = cases[i]
group = df_groups.get_group(case)
yvals = group[state_keys].values[0]
yerr = group[sem_cols].values[0]
ax.bar(x, yvals, width, yerr=yerr, label=case, error_kw=err_kw,
color=clrs[i])
# update bar locations for next group
x = [loc + width for loc in x]
ax.set_title("Weight changes by layer during training")
ax.set_xlabel("Layer")
ax.set_ylabel("Mean abs weight change per layer")
ax.legend()
loc = (len(cases) - 1) / (2. * len(cases))
ax.set_xticks([loc + i * 1.25 for i in range(len(state_keys))])
labels = [k[:-7] for k in df.columns if k.endswith(".weight")]
ax.set_xticklabels(labels)
# optional saving
if not self.save_fig:
print("Not saving.")
plt.show()
return
sub_dir = ensure_sub_dir(self.data_dir, f"figures/{net_name}/weight change/")
cases = " & ".join(cases)
filename = f"{cases} weight.svg"
filename = os.path.join(sub_dir, filename)
print(f"Saving... {filename}")
plt.savefig(filename, dpi=300)
def save_df(self, name, df):
sub_dir = ensure_sub_dir(self.data_dir, f"dataframes/")
filename = os.path.join(sub_dir, name)
df.to_csv(filename, header=True, columns=df.columns)
class Visualizer():
def __init__(self, data_dir, n_classes=10, save_fig=False, refresh=False):
self.data_dir = data_dir
self.save_fig = save_fig
self.refresh = refresh
self.stats_processor = StatsProcessor(data_dir, n_classes)
def plot_activation_fns(self, act_fns):
"""
Plots the given activation functions on the same figure
"""
x = np.linspace(-5, 5, 50)
x = torch.tensor(x)
fig, ax = plt.subplots(figsize=(7, 5))
for fn in act_fns:
y = fn(x)
ax.plot(x, y, label=str(fn))
ax.legend()
# optional saving
if not self.save_fig:
print("Not saving.")
plt.show()
return
sub_dir = ensure_sub_dir(self.data_dir, f"figures/act_fns/")
fn_names = " & ".join([str(fn) for fn in act_fns])
filename = f"{fn_names}.png"
filename = os.path.join(sub_dir, filename)
print(f"Saving... {filename}")
plt.savefig(filename, dpi=300)
def plot_prediction(self, pred_type="linear"):
"""
"""
# pull data
df, case_dict, index_cols = self.stats_processor.load_final_acc_df(
self.refresh)
df_groups = df.groupby(index_cols)
# plot
fig, ax = plt.subplots(figsize=(9, 12))
def scatter_final_acc(self, dataset, net_names, schemes, act_fns):
"""
Plot a scatter plot of predicted vs actual final accuracy for the
given mixed cases.
Args:
net_names
schemes
act_fns
"""
# pull data
df, case_dict, index_cols = self.stats_processor.load_final_acc_df(
self.refresh)
df_groups = df.groupby(index_cols)
# plot
fig, ax = plt.subplots(figsize=(14, 14))
fmts = [".", "^"]
mfcs = ["None", None]
clrs = sns.color_palette("husl", len(mixed_cases))
# plot mixed cases
i = 0
for g in df_groups.groups:
gset, net, scheme, case = g
g_data = df_groups.get_group((dataset, net, scheme, case))
fmt = fmts[net_names.index(net)]
mfc = mfcs[schemes.index(scheme)]
clr = clrs[mixed_cases.index(case)]
# actual
y_act = g_data["final_val_acc"]["mean"].values[0]
y_err = g_data["final_val_acc"]["std"].values[0] * 2
# prediction - get component cases...
x_pred = component_accs.mean()
x_err = component_stds.mean()
# plot
ax.errorbar(x_pred,
y_act,
xerr=x_err,
yerr=y_err,
label=f"{net} {scheme} {case}",
elinewidth=1,
c=clr,
fmt=fmt,
markersize=10,
markerfacecolor=mfc)
i += 1
# plot reference line
x = np.linspace(0, 1, 50)
ax.plot(x, x, c=(0.5, 0.5, 0.5, 0.25), dashes=[6, 2])
# set figure text
ax.set_title(
f"Linear predicted vs actual mixed case final accuracy - {dataset}",
fontsize=18)
ax.set_xlabel("Predicted", fontsize=16)
ax.set_ylabel("Actual", fontsize=16)
ax.set_xlim([0.1, 1])
ax.set_ylim([0.1, 1])
ax.set_aspect("equal", "box")
ax.legend()
# optional saving
if not self.save_fig:
print("Not saving.")
plt.show()
return
sub_dir = ensure_sub_dir(self.data_dir, f"figures/scatter/{dataset}")
net_names = ", ".join(net_names)
schemes = ", ".join(schemes)
act_fns = ", ".join(act_fns)
filename = f"{net_names}_{schemes}_{act_fns}_scatter.png"
filename = os.path.join(sub_dir, filename)
print(f"Saving... {filename}")
plt.savefig(filename, dpi=300)
def plot_final_accuracy(self, net_name, control_cases, mixed_cases):
"""
Plot accuracy at the end of training for given control cases
and mixed case, including predicted mixed case accuracy based
on linear combination of control cases
"""
# pull data
acc_df, case_dict = self.stats_processor.load_final_acc_df(
net_name, control_cases + mixed_cases)
acc_df_groups = acc_df.groupby("case")
# plot...
handles = []
labels = []
fig, axes = plt.subplots(nrows=1,
ncols=2,
figsize=(14, 8),
sharey=True)
fig.subplots_adjust(wspace=0)
clrs = sns.color_palette("hls",
len(control_cases) + 2 * len(mixed_cases))
for i in range(len(control_cases)):
case = control_cases[i]
group = acc_df_groups.get_group(case)
p = float(case_dict[case][0])
# error bars = 2 standard devs
yvals = group["final_val_acc"]["mean"].values
yerr = group["final_val_acc"]["std"].values * 2
h = axes[0].errorbar(p,
yvals[0],
yerr=yerr,
label=case,
capsize=3,
elinewidth=1,
c=clrs[i],
fmt=".")
handles.append(h)
labels.append(case)
# plot mixed case
for i in range(len(mixed_cases)):
mixed_case = mixed_cases[i]
# actual
group = acc_df_groups.get_group(mixed_case)
y_act = group["final_val_acc"]["mean"].values[0]
y_err = group["final_val_acc"]["std"].values * 2
l = f"{mixed_case} actual"
h = axes[1].errorbar(i,
y_act,
yerr=y_err,
label=l,
capsize=3,
elinewidth=1,
c=clrs[len(control_cases) + i],
fmt=".")
labels.append(l)
handles.append(h)
# predicted
ps = [p for p in case_dict[mixed_case]]
component_cases = [
k for k, v in case_dict.items() if len(v) == 1 and v[0] in ps
]
y_pred = acc_df["final_val_acc"]["mean"][component_cases].mean()
l = f"{mixed_case} prediction"
h = axes[1].plot(i,
y_pred,
"x",
label=l,
c=clrs[len(control_cases) + i + 1])
labels.append(l)
handles.append(h)
fig.suptitle("Final accuracy")
axes[0].set_xlabel("Activation function parameter value")
axes[1].set_xlabel("Mixed cases")
axes[0].set_ylabel("Final validation accuracy")
axes[1].xaxis.set_ticks([])
# shrink second axis by 20%
box = axes[1].get_position()
axes[1].set_position([box.x0, box.y0, box.width * 0.8, box.height])
# append legend to second axis
axes[1].legend(handles,
labels,
loc='center left',
bbox_to_anchor=(1, 0.5))
# optional saving
if not self.save_fig:
print("Not saving.")
plt.show()
return
sub_dir = ensure_sub_dir(self.data_dir,
f"figures/{net_name}/final accuracy/")
cases = " & ".join(mixed_cases)
filename = f"{cases} final acc.png"
filename = os.path.join(sub_dir, filename)
print(f"Saving... {filename}")
plt.savefig(filename, dpi=300)
def plot_accuracy(self, dataset, net_name, schemes, cases):
"""
Plots accuracy over training for different experimental cases.
Args:
dataset
net_name
schemes
cases (list): Experimental cases to include in figure.
Returns:
None.
"""
# pull data
acc_df = self.stats_processor.load_accuracy_df(dataset, net_name,
cases, schemes)
# group and compute stats
acc_df.set_index(["train_scheme", "case", "epoch"], inplace=True)
acc_df_groups = acc_df.groupby(["train_scheme", "case", "epoch"])
acc_df_stats = acc_df_groups.agg({"acc": [np.mean, np.std]})
acc_df_stats_groups = acc_df_stats.groupby(["train_scheme", "case"])
# plot
fig, ax = plt.subplots(figsize=(14, 8))
clrs = sns.color_palette("hls", len(acc_df_stats_groups.groups))
for group, clr in zip(acc_df_stats_groups.groups, clrs):
scheme, case = group
group_data = acc_df_stats_groups.get_group((scheme, case))
# error bars = 2 standard devs
yvals = group_data["acc"]["mean"].values
yerr = group_data["acc"]["std"].values * 2
ax.plot(range(len(yvals)), yvals, label=f"{scheme} {case}", c=clr)
ax.fill_between(range(len(yvals)),
yvals - yerr,
yvals + yerr,
alpha=0.1,
facecolor=clr)
ax.set_title("Classification accuracy during training")
ax.set_xlabel("Epoch")
ax.set_ylabel("Validation accuracy")
ax.legend()
step = 5
ax.set_xticks([i * step for i in range(int((len(yvals) + 1) / step))])
# optional saving
if not self.save_fig:
print("Not saving.")
plt.show()
return
sub_dir = ensure_sub_dir(self.data_dir,
f"figures/{dataset}/{net_name}/accuracy/")
case_names = " & ".join(cases)
filename = f"{case_names} accuracy.png"
filename = os.path.join(sub_dir, filename)
print(f"Saving... {filename}")
plt.savefig(filename, dpi=300)
def scatter_final_acc(self, dataset, net_names, schemes, act_fns):
"""
Plot a scatter plot of predicted vs actual final accuracy for the
given mixed cases.
Args:
net_names
schemes
act_fns
"""
# pull data
df, case_dict, index_cols = self.stats_processor.load_final_acc_df(
self.refresh)
df_groups = df.groupby(index_cols)
# plot
fig, ax = plt.subplots(figsize=(14, 14))
fmts = [".", "^"]
mfcs = ["None", None]
clrs = sns.color_palette("husl", len(mixed_cases))
# plot mixed cases
i = 0
for g in df_groups.groups:
gset, net, scheme, case = g
g_data = df_groups.get_group((dataset, net, scheme, case))
fmt = fmts[net_names.index(net)]
mfc = mfcs[schemes.index(scheme)]
clr = clrs[mixed_cases.index(case)]
# actual
y_act = g_data["final_val_acc"]["mean"].values[0]
y_err = g_data["final_val_acc"]["std"].values[0] * 2
# prediction - get component cases...
x_pred = component_accs.mean()
x_err = component_stds.mean()
# plot
ax.errorbar(x_pred,
y_act,
xerr=x_err,
yerr=y_err,
label=f"{net} {scheme} {case}",
elinewidth=1,
c=clr,
fmt=fmt,
markersize=10,
markerfacecolor=mfc)
i += 1
# plot reference line
x = np.linspace(0, 1, 50)
ax.plot(x, x, c=(0.5, 0.5, 0.5, 0.25), dashes=[6, 2])
# set figure text
ax.set_title(
f"Linear predicted vs actual mixed case final accuracy - {dataset}",
fontsize=18)
ax.set_xlabel("Predicted", fontsize=16)
ax.set_ylabel("Actual", fontsize=16)
ax.set_xlim([0.1, 1])
ax.set_ylim([0.1, 1])
ax.set_aspect("equal", "box")
ax.legend()
# optional saving
if not self.save_fig:
print("Not saving.")
plt.show()
return
sub_dir = ensure_sub_dir(self.data_dir, f"figures/scatter/{dataset}")
net_names = ", ".join(net_names)
schemes = ", ".join(schemes)
act_fns = ", ".join(act_fns)
filename = f"{net_names}_{schemes}_{act_fns}_scatter.png"
filename = os.path.join(sub_dir, filename)
print(f"Saving... {filename}")
plt.savefig(filename, dpi=300)
ax.set_xlabel("Layer")
ax.set_ylabel("Mean abs weight change per layer")
ax.legend()
loc = (len(cases) - 1) / (2. * len(cases))
ax.set_xticks([loc + i * 1.25 for i in range(len(state_keys))])
labels = [k[:-7] for k in df.columns if k.endswith(".weight")]
ax.set_xticklabels(labels)
# optional saving
if not self.save_fig:
print("Not saving.")
plt.show()
return
sub_dir = ensure_sub_dir(self.data_dir,
f"figures/{net_name}/weight change/")
cases = " & ".join(cases)
filename = f"{cases} weight.png"
filename = os.path.join(sub_dir, filename)
print(f"Saving... {filename}")
plt.savefig(filename, dpi=300)
if __name__ == "__main__":
visualizer = Visualizer(
"/home/briardoty/Source/allen-inst-cell-types/data_mountpoint",
10,
save_fig=False,
refresh=False)
def plot_predictions(self,
dataset,
net_names,
schemes,
excl_arr,
pred_type="min",
cross_family=None,
pred_std=False):
"""
Plot a single axis figure of offset from predicted number of epochs
it takes a net to get to 90% of its peak accuracy.
"""
# pull data
df, case_dict, idx_cols = self.stats_processor.load_max_acc_df()
# performance relative to predictions
vs = "epochs_past_vs"
df[f"{vs}_linear"] = df["epochs_past"]["mean"] - df[
"linear_pred_epochs_past"]["mean"]
df[f"{vs}_min"] = df["epochs_past"]["mean"] - df[
"min_pred_epochs_past"]["mean"]
# filter dataframe
df = df.query(f"is_mixed") \
.query(f"dataset == '{dataset}'") \
.query(f"net_name in {net_names}") \
.query(f"train_scheme in {schemes}")
if cross_family is not None:
df = df.query(f"cross_fam == {cross_family}")
for excl in excl_arr:
df = df.query(f"not case.str.contains('{excl}')", engine="python")
sort_df = df.sort_values(["net_name", f"{vs}_{pred_type}"],
ascending=False)
# determine each label length for alignment
lengths = {}
label_idxs = [3]
for i in label_idxs:
lengths[i] = np.max(
[len(x) for x in sort_df.index.unique(level=i)]) + 2
# plot
plt.figure(figsize=(16, 16))
plt.gca().axvline(0, color='k', linestyle='--')
clrs = sns.color_palette("Set2", len(net_names))
ylabels = dict()
handles = dict()
sig_arr = list()
i = 0
xmax = 0
xmin = 0
for midx in sort_df.index.values:
# dataset, net, scheme, case, mixed, cross-family
d, n, s, c, m, cf = midx
clr = clrs[net_names.index(n)]
# prettify
if np.mod(i, 2) == 0:
plt.gca().axhspan(i - .5, i + .5, alpha=0.1, color="k")
# stats
perf = sort_df.loc[midx][f"{vs}_{pred_type}"].values[0]
err = sort_df.loc[midx]["epochs_past"]["std"] * 1.98
xmin = min(xmin, perf - err)
xmax = max(xmax, perf + err)
# plot "good" and "bad"
if perf + err < 0:
if cf or cross_family is not None:
plt.plot([perf - err, perf + err], [i, i],
linestyle="-",
c=clr,
linewidth=6,
alpha=.8)
else:
plt.plot([perf - err, perf + err], [i, i],
linestyle=":",
c=clr,
linewidth=6,
alpha=.8)
h = plt.plot(perf, i, c=clr, marker="o")
handles[n] = h[0]
else:
if cf or cross_family is not None:
plt.plot([perf - err, perf + err], [i, i],
linestyle="-",
c=clr,
linewidth=6,
alpha=.2)
plt.plot([perf - err, perf + err], [i, i],
linestyle="-",
linewidth=6,
c="k",
alpha=.1)
else:
plt.plot([perf - err, perf + err], [i, i],
linestyle=":",
c=clr,
linewidth=6,
alpha=.2)
plt.plot([perf - err, perf + err], [i, i],
linestyle=":",
linewidth=6,
c="k",
alpha=.1)
h = plt.plot(perf, i, c=clr, marker="o", alpha=0.5)
if handles.get(n) is None:
handles[n] = h[0]
# optionally, plot the 95% ci for the prediction
if pred_std:
pred_err = sort_df.loc[midx][f"{pred_type}_pred_epochs_past"][
"std"] * 1.98
plt.plot([-pred_err, pred_err], [i, i],
linestyle="-",
c="k",
linewidth=6,
alpha=.2)
# BH corrected significance
sig_arr.append(
sort_df.loc[midx,
f"{pred_type}_pred_epochs_past_rej_h0"].values[0])
# make an aligned label
label_arr = [d, n, s, c]
aligned = "".join(
[label_arr[i].ljust(lengths[i]) for i in label_idxs])
ylabels[i] = aligned
# track vars
i += 1
# indicate BH corrected significance
h = plt.plot(i + 100, 0, "k*", alpha=0.5)
handles["p < 0.05"] = h[0]
for i in range(len(sig_arr)):
if sig_arr[i]:
plt.plot(xmax + xmax / 12., i, "k*", alpha=0.5)
# determine padding for labels
max_length = np.max([len(l) for l in ylabels.values()])
# add handles
if cross_family is None:
h1 = plt.gca().axhline(i + 100,
color="k",
linestyle="-",
alpha=0.5)
h2 = plt.gca().axhline(i + 100,
color="k",
linestyle=":",
alpha=0.5)
handles["cross-family"] = h1
handles["within-family"] = h2
# set figure text
plt.xlabel(
f"N epochs to reach {self.stats_processor.pct}% peak accuracy relative to {pred_type} prediction",
fontsize=16,
labelpad=10)
plt.ylabel("Network configuration", fontsize=16, labelpad=10)
plt.yticks(list(ylabels.keys()), ylabels.values(), ha="left")
plt.ylim(-0.5, i + 0.5)
plt.legend(handles.values(),
handles.keys(),
fontsize=14,
loc="lower left")
plt.xlim([xmin - xmax / 10., xmax + xmax / 10.])
yax = plt.gca().get_yaxis()
yax.set_tick_params(pad=max_length * 7)
plt.tight_layout()
# optional saving
if not self.save_fig:
print("Not saving.")
plt.show()
return
sub_dir = ensure_sub_dir(self.data_dir, f"figures/learning prediction")
net_names = ", ".join(net_names)
schemes = ", ".join(schemes)
filename = f"{dataset}_{net_names}_{schemes}_{pred_type}-learning-prediction"
if cross_family == True:
filename += "_xfam"
elif cross_family == False:
filename += "_infam"
filename = os.path.join(sub_dir, filename)
print(f"Saving... {filename}")
plt.savefig(f"{filename}.svg")
plt.savefig(f"{filename}.png", dpi=300)
def plot_accuracy(self,
dataset,
net_name,
schemes,
groups,
cases,
inset=True):
"""
Plots accuracy over training for different experimental cases.
Args:
dataset
net_name
schemes
cases (list): Experimental cases to include in figure.
Returns:
None.
"""
# pull data
acc_df = self.stats_processor.load_accuracy_df(dataset, net_name,
schemes, cases)
# process a bit
acc_df = acc_df.query(f"group in {groups}")
index_cols = ["dataset", "net_name", "train_scheme", "case", "epoch"]
acc_df.set_index(index_cols, inplace=True)
df_stats = acc_df.groupby(index_cols).agg(
{"val_acc": [np.mean, np.std]})
# group
df_groups = df_stats.groupby(index_cols[:-1])
# plot
fig, ax = plt.subplots(figsize=(14, 8))
clrs = sns.color_palette("hls", len(df_groups.groups))
y_arr = []
yerr_arr = []
for group, clr in zip(df_groups.groups, clrs):
d, n, s, c = group
group_data = df_groups.get_group(group)
# error bars = 2 standard devs
yvals = group_data["val_acc"]["mean"].values * 100
yerr = group_data["val_acc"]["std"].values * 1.98 * 100
ax.plot(range(len(yvals)), yvals, label=f"{s} {c}", c=clr)
ax.fill_between(range(len(yvals)),
yvals - yerr,
yvals + yerr,
alpha=0.1,
facecolor=clr)
# for the insert...
y_arr.append(yvals)
yerr_arr.append(yerr)
# zoomed inset
if inset:
axins = zoomed_inset_axes(ax, zoom=10, loc=8)
for yvals, yerr, clr in zip(y_arr, yerr_arr, clrs):
nlast = 10
x = [i for i in range(len(yvals) - nlast, len(yvals))]
y_end = yvals[-nlast:]
yerr_end = yerr[-nlast:]
axins.plot(x, y_end, c=clr)
axins.fill_between(x,
y_end - yerr_end,
y_end + yerr_end,
alpha=0.1,
facecolor=clr)
mark_inset(ax, axins, loc1=2, loc2=4, fc="none", ec="0.5")
axins.xaxis.set_ticks([])
ax.set_title(
f"Classification accuracy during training: {net_name} on {dataset}",
fontsize=20)
ax.set_xlabel("Epoch", fontsize=16)
ax.set_ylabel("Validation accuracy (%)", fontsize=16)
ax.set_ylim([0, 100])
ax.legend(fontsize=14)
plt.tight_layout()
# optional saving
if not self.save_fig:
print("Not saving.")
plt.show()
return
sub_dir = ensure_sub_dir(self.data_dir, f"figures/accuracy/")
case_names = ", ".join(cases)
schemes = ", ".join(schemes)
filename = f"{dataset}_{net_name}_{schemes}_{case_names} accuracy"
filename = os.path.join(sub_dir, filename)
print(f"Saving... {filename}")
plt.savefig(f"{filename}.svg")
plt.savefig(f"{filename}.png", dpi=300)
# figure text
# fig.suptitle(f"Classification accuracy during training: {net_name} on {dataset}", fontsize=large_font_size)
ax.set_xlabel("Epoch", fontsize=large_font_size)
ax.set_ylabel(f"{acc_type} accuracy (%)", fontsize=large_font_size)
ax.set_ylim([10, 100])
ax.legend(fontsize=small_font_size)
plt.tight_layout()
# optional saving
if not self.save_fig:
print("Not saving.")
plt.show()
return
sub_dir = ensure_sub_dir(self.data_dir, f"figures/accuracy/")
filename = f"{dataset}_{net_name}_{scheme}_{case} accuracy"
filename = os.path.join(sub_dir, filename)
print(f"Saving... {filename}")
plt.savefig(f"{filename}.svg")
plt.savefig(f"{filename}.png", dpi=300)
def plot_single_accuracy(self,
dataset,
net_name,
scheme,
case,
metric="z",
sample=0):
"""
Plot single net accuracy trajectory with windowed z score
