def save_embed_fig(
path: Union[Path, str],
bbox_inches: Union[Number, str] = "tight",
transparent: bool = True,
attempt_fix_empty_white_space: bool = False,
post_process_crop: bool = False,
ax: Axes = None,
suffix: str = ".pdf",
**kwargs,
) -> None:
"""Save fig for latex pdf embedding"""
if attempt_fix_empty_white_space: # remove it
# pyplot.gca().set_axis_off()
# pyplot.axis('off') # this rows the rectangular frame
# ax.get_xaxis().set_visible(False) # this removes the ticks and numbers for x axis
# ax.get_yaxis().set_visible(False) # this removes the ticks and numbers for y axis
if ax is None:
ax = pyplot.gca()
pyplot.subplots_adjust(top=1, bottom=0, right=1, left=0, hspace=0, wspace=0)
pyplot.margins(0, 0)
ax.xaxis.set_major_locator(pyplot.NullLocator())
ax.yaxis.set_major_locator(pyplot.NullLocator())
"""
clip_box = Bbox(((0,0),(300,300)))
for o in pyplot.findobj():
o.set_clip_on(True)
o.set_clip_box(clip_box)
"""
if not isinstance(path, Path):
path = Path(path)
path_str = str(path.with_suffix(suffix))
pyplot.savefig(
path_str,
bbox_inches=bbox_inches,
transparent=transparent,
**kwargs,
)
if (
post_process_crop and suffix == ".pdf"
): # Generally a good idea since matplotlib does not exclude invisible parts(eg. data points or anchors) of the plot.
from pdfCropMargins import crop # pip install pdfCropMargins
crop(
[
"-p",
"0", # remove all percentage of old margin
"-a",
"-5", # add 5bp margin around all
path_str,
]
)
def visualize_sp(zipped: Any) -> None:
line, hide, output_dir = zipped
step, qid, did, label, logit, attens = line.split("\t")
splits = attens.split(" ")
words, weights = splits[::2], [float(x) for x in splits[1::2]]
assert len(words) == len(weights)
for i in range(len(words)):
if words[i] in hide:
weights[i] = 0
dummy = f"{output_dir}/.{step}-{qid}-{did}-{label}-{logit}.pdf"
name = f"{output_dir}/{step}-{qid}-{did}-{label}-{logit}.pdf"
colorize(words, weights, False, dummy, max(weights) * 1.2)
crop(["-p", "0", "-o", name, dummy])
os.unlink(dummy)
def pad_pdf(filepath):
with Pdf.open(filepath) as pdf:
_, _, W, H = list(pdf.pages[0].MediaBox)
W = float(W)
H = float(H)
# right_pad = int(W*0.2)
# bottom_pad = int(right_pad*H/W)
#logger.info(f"{filepath} Adding padding. Bottom={bottom_pad} right={right_pad}")
#subprocess.run(" ".join(["pdfcrop", "--margin", f"'0 0 {right_pad} {bottom_pad}'", filepath, filepath]), shell=True)
print("Start pad")
crop([
"-p", "0", "-p4", "0", "200", "200", "0", "-a4", "-15", "0", "0", "0",
str(filepath), "-o",
str(filepath) + "_temp"
])
print("End pad")
os.rename(str(filepath) + "_temp", str(filepath))
return filepath
# absolute off-set from left to left: left, bottom, right, head/pixel # python -m pip install pdfCropMargins # python -m pip install pdfCropMargins[gui] --upgrade --user # if pdf corrupted use --gsFix option. # this option requires gswin32c.exe which may be downloaded from https://www.ghostscript.com/download/gsdnld.html from pdfCropMargins import crop filename = "Figure3.pdf" crop(["-p", "0", "-gui", "--gsFix", filename])
Simple test of calling pdfCropMargins from a user Python script.
"""
from __future__ import print_function, division, absolute_import
import sys
import os
bin_dir = os.path.dirname(os.path.realpath(os.path.expanduser(__file__)))
package_dir = os.path.abspath(os.path.join(bin_dir, "..", "src"))
sys.path.insert(0, package_dir)
from pdfCropMargins import crop
try:
crop([
"~/papersToRead/dimethylethanolamine-DMAE-andSelectedSaltsAndEsters_2002.pdf",
"-gui", "-Zv"
])
except BaseException as e:
print("\nBad command args! Exception is:\n", e, sep="")
crop([
"~/papersToRead/dimethylethanolamine-DMAE-andSelectedSaltsAndEsters_2002.pdf",
"-gui", "-v"
])
crop([
"~/papersToRead/canWeBelieveInA-PurelyUnitaryQuantumDynamics_Herbut2005.pdf",
"-gui", "-v"
])
os.system(cmd)
doc = fitz.open(locfile)
# doc.delete_pages(chap_end, -1)
# doc.delete_pages(0, chap_start - 2)
# repeat every page two times
for origin_pagenum in range(len(doc)):
pagenum = origin_pagenum * 2
doc.fullcopy_page(pagenum, pagenum)
doc.save(xmpdf)
doc.close()
# crop each page
crop(["-b", "c", "-ap", "73", "-p", "5", "-v", xmpdf, "-o", xmcpdf])
xmdoc = fitz.open(xmpdf)
xmcdoc = fitz.open(xmcpdf)
for pagenum in range(0, len(xmdoc), 2):
xmpage = xmdoc.load_page(pagenum)
X0 = xmpage.cropbox.x0
Y0 = xmpage.cropbox.y0
X1 = xmpage.cropbox.x1
Y1 = xmpage.cropbox.y1
xmcpage = xmcdoc.load_page(pagenum)
x0 = xmcpage.cropbox.x0
y0 = xmcpage.cropbox.y0
x1 = xmcpage.cropbox.x1
y1 = xmcpage.cropbox.y1
import platform
test_installed_package = True
if not test_installed_package:
bin_dir = os.path.dirname(os.path.realpath(os.path.expanduser(__file__)))
package_dir = os.path.abspath(os.path.join(bin_dir, "..", "src"))
sys.path.insert(0, package_dir)
from pdfCropMargins import crop
try: # Catch an exception, in this case a bad argument.
print("running bad command-line test")
crop([
"$tpdfc/dimethylethanolamine-DMAE-andSelectedSaltsAndEsters_2002.pdf",
"-gui", "-Zv"
],
string_io=False)
except BaseException as e: # Note BaseException is needed to catch a SystemExit.
print("\nCaught exception {} running pdfCropMargins:\n ".format(
type(e).__name__),
e,
sep="")
#crop(["$tpdfc/canWeBelieveInA-PurelyUnitaryQuantumDynamics_Herbut2005.pdf", "-gui", "-pf", "-v"])
#crop(["$tpdfc/dimethylethanolamine-DMAE-andSelectedSaltsAndEsters_2002.pdf", "-gui", "-pf", "-v"])
exit_code, stdout, stderr = None, None, None
try:
# Run capturing any SystemExit exit code and the string output.
exit_code, stdout, stderr = crop([
doc.delete_pages(chap_end, -1)
doc.delete_pages(0, chap_start - 2)
# repeat every page three times
for origin_pagenum in range(len(doc)):
pagenum = origin_pagenum * 3
doc.fullcopy_page(pagenum, pagenum)
pagenum = pagenum + 1
doc.fullcopy_page(pagenum, pagenum)
doc.save(xmpdf)
doc.close()
# crop each page
crop(["-b", "c", "-ap", "10", "-p", "5", xmpdf, "-o", xmcpdf])
xmdoc = fitz.open(xmpdf)
xmcdoc = fitz.open(xmcpdf)
for pagenum in range(0, len(xmdoc), 3):
xmpage = xmdoc.load_page(pagenum)
X0 = xmpage.cropbox.x0
Y0 = xmpage.cropbox.y0
X1 = xmpage.cropbox.x1
Y1 = xmpage.cropbox.y1
xmcpage = xmcdoc.load_page(pagenum)
x0 = xmcpage.cropbox.x0
y0 = xmcpage.cropbox.y0
x1 = xmcpage.cropbox.x1
y1 = xmcpage.cropbox.y1