AMi_Image_Analysis/pdf_writer.py at master · LP-CDF/AMi_Image_Analysis · GitHub

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import fpdf
import datetime
import os
from PIL import Image


'''
Taken from
https://github.com/dakota0064/Fluorescent_Robotic_Imager
and adapted for TIFF handling by L.P.
2019
'''

__date__ = "06-07-2022"

class PDF(fpdf.FPDF):

    def header(self):

        # insert logo
#        self.image("util_images/logo.png", x=10, y=6, w=60, h=20)

        # position logo on the right
        #self.cell(80)

        self.set_font("Arial", size=14)

        date = datetime.date.today()
        self.cell(0, 6, str(date), align="R", ln=1)

        # set the font for the header, B=Bold
        self.set_font("Arial", style="B", size=20)

        # page title
        self.cell(0, 30, "Crystallization Report", border=0, ln=0, align="C")

        # insert a line break of 20 pixels
        self.ln(20)

    #----------------------------------------------------------------------------

    def footer(self):

        # position footer at 15mm from the bottom
        self.set_y(-15)

        # set the font, I=italic
        self.set_font("Arial", style="I", size=8)

        # display the page number and center it
        pageNum = "Page %s/{nb}" % self.page_no()
        self.cell(0, 10, pageNum, align="C")

    #-----------------------------------------------------------------------------

def create_pdf(_list):
    unsupported=[".tif",".tiff",".TIFF", ".TIF"]
    TIFFFILE=False
    well = _list[0]
    well_image = _list[1]
    project_name = _list[2]
    target_name = _list[3]
    plate_name = _list[4]
    date = _list[5]
    if _list[6]=="None":
        prepdate="Not available"
    else:
        prepdate=_list[6]
        d0=datetime.date(int(prepdate[0:4]), int(prepdate[4:6]), int(prepdate[6:]))
        d1=datetime.date(int(date[0:4]), int(date[4:6]), int(date[6:]))
        delta = d1 - d0
        prepdate="%s-%s-%s"%(prepdate[0:4], prepdate[4:6], prepdate[6:])

    outputpath=_list[7]

    notes = _list[8]
#    print("TIF EXT ", os.path.splitext(os.path.basename(well_image))[1])
#    print("IMAGE PATH", well_image)
#    print("OUTPUT JPEG ", os.path.dirname(well_image)+"/"+os.path.splitext(os.path.basename(well_image))[0]+".jpeg")
    if os.path.splitext(os.path.basename(well_image))[1] in unsupported:
        img = Image.open(well_image)
        rgb_img = img.convert('RGB')
        path=os.path.dirname(well_image)+"/"+os.path.splitext(os.path.basename(well_image))[0]
        rgb_img.save(path + ".jpeg",'jpeg')
        well_image=path + ".jpeg"
        TIFFFILE=True
    pdf = PDF('P','mm','A4')
    pdf.alias_nb_pages()
    pdf.add_page()
    pdf.set_font("Arial", size=14)

    pdf.cell(0, 15, "Well: " + well, align="C", ln=1)

    pdf.image(well_image, 52, 50, w=105, h=80)

    pdf.ln(90)

    pdf.set_font("Arial", style="B", size=12)
    pdf.cell(50, 0, "Project name: ", align="R", ln=0)

    pdf.set_font("Arial", size=12)
    pdf.cell(0, 0, project_name, align="L", ln=1)

    pdf.set_font("Arial", style="B", size=12)
    pdf.cell(50, 18, "Target name: ", align="R", ln=0)

    pdf.set_font("Arial", size=12)
    pdf.cell(0, 18, target_name, align="L", ln=1)

    pdf.set_font("Arial", style="B", size=12)
    pdf.cell(50, 0, "Plate name: ", align="R", ln=0)

    pdf.set_font("Arial", size=12)
    pdf.cell(0, 0, plate_name, align="L", ln=1)

    pdf.set_font("Arial", style="B", size=12)
    pdf.cell(50, 18, "Date of image: ", align="R", ln=0)

    pdf.set_font("Arial", size=12)
    if prepdate=="Not available":
        pdf.cell(0, 18, "%s-%s-%s (Preparation date: %s)"%(date[0:4], date[4:6], date[6:], prepdate), align="L", ln=1)
    else:
        pdf.cell(0, 18, "%s-%s-%s (Preparation date: %s, Number of days: %s)"%(date[0:4], date[4:6], date[6:], prepdate, delta.days), align="L", ln=1)

    pdf.ln(2)

    pdf.set_font("Arial", size=12, style="B")
    pdf.cell(50, 0, "Notes: ", align="R", ln=0)

    pdf.set_font("Arial", size=10)
    pdf.multi_cell(120, 5, notes, 'J')

    pdf.output(outputpath)

    if TIFFFILE==True and os.path.exists(path + ".jpeg"):
        os.remove(path + ".jpeg")