app.py

import streamlit as st
import re
import time
import logging
import fitz  # PyMuPDF
import io

# Configure logging
logging.basicConfig(level=logging.INFO, format='%(asctime)s - %(levelname)s - %(message)s')


def check_US_UK_consistency(text):
    """
    Searches the input text for inconsistent use of US and UK English spellings.
    Returns a list of issues for inconsistent spellings found.
    Excludes matches if an integer between 1900 and 2100 appears within 200 characters after the match.

    Args:
        text (str): The string to search through.
    
    Returns:
        list: List of strings describing the inconsistencies found, or empty list if none.
    """
    issues = []

    spelling_pairs = [
        ('analyze(?:d|ing)?', 'analyse(?:d|ing)?'),
        ('(?:un)?catalyze(?:d|s|ing)?', '(?:un)?catalyse(?:d|s|ing)?'),
        ('sulfur', 'sulphur'),
        ('aluminum', 'aluminium'),
        ('color(?:ed|ing|s|less)?', 'colour(?:ed|ing|s|less)?'),
        ('flavor(?:ed|ing|s)?', 'flavour(?:ed|ing|s)?'),
        ('liter', 'litre'),
        ('fiber', 'fibre'),
        ('meter', 'metre'),
        ('neighbor(?:ed|ing|s)?', 'neighbour(?:ed|ing|s)?'),
        ('(?:re)?organiz(?:e|ed|ing|es|ation)', '(?:re)?organis(?:e|ed|ing|es|ation)'),
        ('vapor', 'vapour'),
        ('behavior', 'behaviour'),
        ('realiz(?:e|ed|ing|es|ation)', 'realis(?:e|ed|ing|es|ation)'),
        ('synthetize(?:d|s)?', 'synthetise(?:d|s)?'),
        ('characteriz(?:e|ed|ing|es|ation)', 'characteris(?:e|ed|ing|es|ation)'),
        ('(?:re)?crystalliz(?:e|ed|ing|es|ation)', '(?:re)?crystallis(?:e|ed|ing|es|ation)'),
        ('polymeriz(?:e|ed|ing|es|ation)', 'polymeris(?:e|ed|ing|es|ation)'),
        ('oxidized', 'oxidised'),
        ('neutraliz(?:e|ed|ing|es|ation)', 'neutralis(?:e|ed|ing|es|ation)'),
        ('hydrolyzed', 'hydrolysed'),
        ('standardiz(?:e|ed|ing|es|ation)', 'standardis(?:e|ed|ing|es|ation)'),
        ('ioniz(?:e|ed|ing|es|ation)', 'ionis(?:e|ed|ing|es|ation)'),
        ('solubiliz(?:e|ed|ing|es|ation)', 'solubilis(?:e|ed|ing|es|ation)'),
        ('functionalized', 'functionalised'),
        ('electrolyzed', 'electrolysed'),
        ('homogeniz(?:e|ed|ing|es|ation)', 'homogenis(?:e|ed|ing|es|ation)'),
        ('lyophiliz(?:e|ed|ing|es|ation)', 'lyophilis(?:e|ed|ing|es|ation)'),
        ('polariz(?:e|ed|ing|es|ation)', 'polaris(?:e|ed|ing|es|ation)'),
        ('isomeriz(?:e|ed|ing|es|ation)', 'isomeris(?:e|ed|ing|es|ation)'),
        ('immobiliz(?:e|ed|ing|es|ation)', 'immobilis(?:e|ed|ing|es|ation)'),
        ('stabiliz(?:e|ed|ing|es|ation)', 'stabilis(?:e|ed|ing|es|ation)'),
        ('optimiz(?:e|ed|ing|es|ation)', 'optimis(?:e|ed|ing|es|ation)'),
        ('odor', 'odour'),
        ('galvaniz(?:e|ed|ing|es|ation)', 'galvanis(?:e|ed|ing|es|ation)'),
        ('(?:re)?model(?:ing|ed|s)?', '(?:re)?modell(?:ing|ed|s)?'),
        ('(?:re)?label(?:ing|ed|s)?', '(?:re)?labell(?:ing|ed|s)?'),
        ('gray', 'grey'),
    ]


    year_pattern = re.compile(r'\b(19\d{2}|20\d{2}|2100)\b')

    for us, uk in spelling_pairs:
        us_matches = [m for m in re.finditer(r'\b' + us + r'\b', text, re.I)]
        uk_matches = [m for m in re.finditer(r'\b' + uk + r'\b', text, re.I)]

        valid_us_matches = []
        for match in us_matches:
            after_text = text[match.end():match.end()+200]
            if not year_pattern.search(after_text):
                valid_us_matches.append(match)

        valid_uk_matches = []
        for match in uk_matches:
            after_text = text[match.end():match.end()+200]
            if not year_pattern.search(after_text):
                valid_uk_matches.append(match)

        if valid_us_matches and valid_uk_matches:
            issue = f"Inconsistent UK/US spelling detected:\n\n"
            
            # Add US spelling examples (limit to 3)
            issue += "US spelling examples:\n"
            for match in valid_us_matches[:3]:
                start, end = match.span()
                context = text[max(0, start-20):end+20]
                issue += f"  • ...{context}...\n"
            
            # Add UK spelling examples (limit to 3)
            issue += "\nUK spelling examples:\n"
            for match in valid_uk_matches[:3]:
                start, end = match.span()
                context = text[max(0, start-20):end+20]
                issue += f"  • ...{context}...\n"
            
            issue += "\n→ Reminder: Maintain consistent spelling throughout the manuscript!"
            issues.append(issue)

    return issues



def transform_citations(text, journal_patterns=None):
    """
    Transform all citations in a text from format "Journal Vol(Issue), Pages (Year)"
    to "Journal Year, Vol(Issue), Pages"
    """
    if journal_patterns is None:
        # Default patterns for common journals
        journal_patterns = [
            r'J\. Am\. Chem\. Soc\.',
            r'Chem\. Eur\. J\.',
            r'Angew\. Chem\. Int\. Ed\.',
            r'ACS\. Catal.\.',
            r'Org\. Lett.\.',
            r'Tetrahedron\. Lett.\.',
            # Add more journal patterns as needed
        ]

    # Create pattern for full citation
    journal_group = f"({'|'.join(journal_patterns)})"
    # Updated volume_group to include optional issue in parentheses
    volume_group = r'(\d+(?:\(\d+\))?)'
    pages_group = r'(\d+(?:[-–]\d+)?)'
    year_group = r'\((\d{4})\)'

    pattern = f"{journal_group}\\s+{volume_group},\\s*{pages_group}\\s*{year_group}"

    def replace_citation(match):
        journal = match.group(1)
        volume = match.group(2)  # Now includes issue if present
        pages = match.group(3)
        year = match.group(4)

        # Check if there's a period after the citation
        end_period = '.' if match.string[match.end():].startswith('.') else ''

        return f"{journal} {year}, {volume}, {pages}{end_period}"

    # Replace all matching citations in the text
    processed_text = re.sub(pattern, replace_citation, text)

    return processed_text


def validate_citation(text):
    """
    Validates citations in the format "<Journal> <Year>, <Volume>" where <Year> and <Volume> are integers.
    Checks if Year - Volume equals the journal's founding year offset.
    """
    # Dictionary mapping journals to their founding year offsets
    journal_offsets = {
        "J. Am. Chem. Soc.": 1878,
        "Org. Lett.": 1998,
        "Chem. Eur. J.": 1994,
        "ACS Catal.": 2010,
        "Angew. Chem. Int. Ed.": 1961,
        "Tetrahedron Lett.": 1959,
    }

    # Create the regex pattern, sorting by length to match longer names first
    sorted_journals = sorted(journal_offsets.keys(), key=len, reverse=True)
    journal_patterns = [re.escape(name) for name in sorted_journals]
    journals_regex = '|'.join(journal_patterns)

    # Complete pattern with year and volume groups
    pattern = f"({journals_regex})\\s+(\\d+),\\s*(\\d+)"

    # Find all matches in the text
    matches = re.finditer(pattern, text)

    results = []
    for match in matches:
        journal = match.group(1)  # Exact journal match
        year = int(match.group(2))
        volume = int(match.group(3))

        offset = journal_offsets.get(journal)
        citation = f"{journal} {year}, {volume}"

        if offset is None:
            results.append(f"{citation}: Journal not supported.")
        elif year - volume != offset:
            results.append(f"{citation}: wrong year or volume (expected offset {offset})")

    return results


def check_text(text):
    """
    Searches the input text for various patterns using regex and shows context around matches.
    """
    patterns = {
        r'\b(\S+\s+\d+(?:\.\d+)?\s+oC\b)': "Use the ° symbol in °C, not a superscripted o: ",
        r'\b\d+(?:\.\d+)?\s+%\s+yield\b': "No space between the numeric value and %: ",
        r'\b\d+(?:\.\d+)?\s*mg/ml\b': "The volume is specified in mL, not ml: ",
        r'\b\d+(?:\.\d+)?\s+ml\b': "The volume is specified in mL, not ml: ",
        r'\b(?:one|two|three)(?!-)\s+neck(?:ed)?\b|\b(?:round|flat)(?!-)\s+bottom\b|\bpear(?!-)\s+shaped\b': (
            "Hyphenate 'one-necked' and 'round-bottom, e.g. one-necked round-bottom flask): "
        ),
        r'\b\d+(?:\.\d+)?[-]\s*[mL]L\s+round\b': "No hyphen around L and mL",
        r'\banti-bacterial\b': "Use 'antibacterial' without hyphen: ",
        r'\bco-operation\b': "Use 'cooperation' without hyphen: ",
        r'\bmicro-organism\b': "Use 'microorganism' without hyphen: ",
        r'\bmulti-colored\b': "Use 'multicolored' without hyphen: ",
        r'\bnon-polar\b': "Use 'nonpolar' without hyphen: ",
        r'\bphoto-redox\b': "Use 'photoredox' without hyphen: ",
        r'\bpre-cooled\b': "Use 'precooled' without hyphen: ",
        r'\bsuper-acid\b': "Use 'superacid' without hyphen: ",
        r'\bmembered-ring\b': "Use 'membered ring' without hyphen: ",
        r'\bMembered-Ring\b': "Use 'Membered Ring' without hyphen: ",
        r'\bBronsted acid\b': "Use ø in Brønsted: ",
        r'X-Ray': "Always use lowercase r in X-ray (even when capitalized): ",
        r'x ray': "Use X and hyphen in X-ray: ",
        r'X ray': "Use hyphen in X-ray: ",
        r'\(-\)-': "Use (–)- instead of ",
        r'\b\d+(?:\.\d+)?mL\b': "Missing space between value and mL: ",
        r'\b\d+(?:\.\d+)?µm\b': "Missing space between value and µm: ",
        r'\b\d+(?:\.\d+)?mm\b': "Missing space between value and mm: ",
        r'\b\d+(?:\.\d+)?cm\b': "Missing space between value and cm: ",
        r'\b\d+(?:\.\d+)?mg\b': "Missing space between value and mg: ",
        r'\b\d+(?:\.\d+)?min\b': "Missing space between value and min: ",
        r'(?<!\[)\b\d+(?:\.\d+)?M\b': "Missing space if M means molar (concentration): ",
        r'\b\d+(?:\.\d+)?mM\b': "Missing space between value and mM: ",
        r'\b\d+(?:\.\d+)?μM\b': "Missing space between value and μM: ",
        r'\b(?!1[45]N)(\d+(?:\.\d+)?)N\b': "Missing space if N means normal (concentration): ",
        r'\b\d+(?:\.\d+)?K\b': "Missing space if K means Kelvin: ",
        r'\b\d+,\d+(?=\s?(?:g|mg|mol|mmol|M|h|min|°C|mL)\b)': "Incorrect use of a comma instead of a decimal point",
        r',\s*\d+\.\s+\d+(?=\s?(?:g|mg|mol|mmol|h|min|°C|mL)\b)': "Unintended space? ",
        r'(?<![a-zA-Z0-9])([‒−–-]\d+(?:\.\d+)?)\s*[‒−–-]{1,2}\s*([‒−–-]\d+(?:\.\d+)?)(?![a-zA-Z0-9])': "Use '–a.b to –c.d' for negative numeric ranges: ",
        r'\b(\d+(?:\.\d+)?)-(\d+(?:\.\d+)?)\s* °C\b': "Use en dash (–) for temperature ranges: ",
        r'\b(\d+(?:\.\d+)?)-(\d+(?:\.\d+)?)\s* g\b': "Use en dash (–) for mass ranges: ",
        r'\b(\d+(?:\.\d+)?)-(\d+(?:\.\d+)?)\s* mg\b': "Use en dash (–) for mass ranges: ",
        r'from\s+(\d+(?:\.\d+)?)\s*[–—]\s*(\d+(?:\.\d+)?(?:\s*[A-Za-z°]*)?)\b':
            "Do not use en dash in a 'from  X—Y' construction. Use 'from X to Y' instead: ",
        r'between\s+(\d+(?:\.\d+)?)\s*[–—]\s*(\d+(?:\.\d+)?(?:\s*[A-Za-z°]*)?)\b':
            "Do not use en dash in a 'between X—Y' construction. Use 'between X and Y' instead: ",
        r'\b\d+\s+fold\b': "Hyphenate numeral and 'fold': ",
        r'\b\d+(?:\.\d+)?°C\b': "Missing space between value and °C: ",
        r'\b\d+(?:\.\d+)?° K\b': "Use K without °, e.g. 298 K: ",
        r'\b\d+(?:\.\d+)?±\d+(?:\.\d+)?\b': "Missing spaces around the ± symbol: ",
        r'\b\d+(?:\.\d+)?\s*uL\b': "Use μL instead of uL for microliters: ",
        r'\b\d+(?:\.\d+)?\s*ug\b': "Use μg instead of ug for micrograms: ",
        r'\b\d+(?:\.\d+)?\s*umol\b': "Use μmol instead of umol for micromol: ",
        r'\b\d+(?:\.\d+)?\s*uM\b': "Use μM instead of uM for micromolar: ",
        r'\b\d+(?:\.\d+)?ppm\b': "Missing space between value and ppm: ",
        r'\b\d+(?:\.\d+)?bar\b': "Missing space between value and bar: ",
        r'\b\d+(?:\.\d+)?mbar\b': "Missing space between value and mbar: ",
        r'\b\d+(?:\.\d+)?\s*mol/l\b': "Use mol/L instead of mol/l: ",
        r'\b\d+(?:\.\d+)?\s*g/l\b': "Use g/L instead of g/l: ",
        r'\b\d+(?:\.\d+)?\s*mol·l–1\b': "Use mol·L⁻¹ instead of mol·l⁻¹: ",
        r'\b\d+(?:\.\d+)?\s*g·l–1\b': "Use g·L⁻¹ instead of g·l⁻¹: ",
        r'\b\d+(?:\.\d+)?\s*mhz\b': "Use MHz (capital H): ",
        r'\b\d+(?:\.\d+)?\s*gr\b': "Use g instead of gr: ",
        r'\b\d+(?:\.\d+)?\s*hrs?\b': "Use h instead of hr/hrs: ",
        r'/[Ee]natio/': "Misspelling of enantio...: ",
        r'/[Aa]symetr/': "Misspelling of asymmetr...: ",
        r'/[Pp]thal/': "Misspelling of phthal...: ",
        r'/[Nn]aphth.../': "Misspelling of naphth...: ",
        r'/[Ss]terosel.../': "Misspelling of stereosel...: ",
        r'\s+(-?\d+(\.\d+)?)\s+eq\.(?!\s*\d)': "Use 'equiv' for equivalents and 'eq.' for equation: ",
        r'\s+(-?\d+(\.\d+)?)\s+eq\)(?!\s*\d)': "Use 'equiv' for equivalents: ",
        r'[Cc]alc[\'´](?:d|ed)': "Use Calcd or calcd instead of ",
        r'treated with': "Check if 'reacted/washed/extracted with' etc. is more appropriate than ",
        
        # Joining names
        r'Diels-Alder': "Use en dash (–) for Diels–Alder: ",
        r'Bednorz-Müller': "Use en dash (–) for Bednorz–Müller: ",
        r'Beer-Lambert': "Use en dash (–) for Beer–Lambert: ",
        r'Bose-Einstein': "Use en dash (–) for Bose–Einstein: ",
        r'Debye-Hückel': "Use en dash (–) for Debye–Hückel: ",
        r'Fermi-Dirac': "Use en dash (–) for Fermi–Dirac: ",
        r'Fischer-Tropsch': "Use en dash (–) for Fischer–Tropsch: ",
        r'Fisher-Johns': "Use en dash (–) for Fisher–Johns: ",
        r'Flory-Huggins': "Use en dash (–) for Flory–Huggins: ",
        r'Franck-Condon': "Use en dash (–) for Franck–Condon: ",
        r'Friedel-Crafts': "Use en dash (–) for Friedel–Crafts: ",
        r'Geiger-Müller': "Use en dash (–) for Geiger–Müller: ",
        r'Henderson-Hasselbalch': "Use en dash (–) for Henderson–Hasselbalch: ",
        r'Jahn-Teller': "Use en dash (–) for Jahn–Teller: ",
        r'Lee-Yang-Parr': "Use en dash (–) for Lee–Yang–Parr: ",
        r'Lineweaver-Burk': "Use en dash (–) for Lineweaver–Burk: ",
        r'Mark-Houwink': "Use en dash (–) for Mark–Houwink: ",
        r'Meerwein-Ponndorf': "Use en dash (–) for Meerwein–Ponndorf: ",
        r'Michaelis-Menten': "Use en dash (–) for Michaelis–Menten: ",
        r'Stern-Volmer': "Use en dash (–) for Stern–Volmer: ",
        r"van't Hoff-Le Bel": "Use en dash (–) for van't Hoff–Le Bel: ",
        r'Wolff-Kishner': "Use en dash (–) for Wolff–Kishner: ",
        r'Young-Laplace': "Use en dash (–) for Young–Laplace: ",
        r'Ziegler-Natta': "Use en dash (–) for Ziegler–Natta: ",
        r'Baeyer-Villiger': "Use en dash (–) for Baeyer–Villiger: ",
        r'Schotten-Baumann': "Use en dash (–) for Schotten–Baumann: ",
        r'Buchwald-Hartwig': "Use en dash (–) for Buchwald–Hartwig: ",
        r'Kumada-Corriu': "Use en dash (–) for Kumada–Corriu: ",
        r'Nozaki-Hiyama': "Use en dash (–) for Nozaki–Hiyama: ",
        r'Suzuki-Miyaura': "Use en dash (–) for Suzuki–Miyaura: ",
        r'Mizoroki-Heck': "Use en dash (–) for Mizoroki–Heck: ",
        r'Wittig-Horner': "Use en dash (–) for Wittig–Horner: ",
        r'Claisen-Schmidt': "Use en dash (–) for Claisen–Schmidt: ",
        r'Stille-Kelly': "Use en dash (–) for Stille–Kelly: ",
        r'Reformatsky-Claisen': "Use en dash (–) for Reformatsky–Claisen: ",
        r'Sonogashira-Hagihara': "Use en dash (–) for Sonogashira–Hagihara: ",
        r'Grubbs-Hoveyda': "Use en dash (–) for Grubbs–Hoveyda: ",
        r'Hoveyda-Grubbs': "Use en dash (–) for Hoveyda–Grubbs: ",
        r'Petasis-Ferrier': "Use en dash (–) for Petasis–Ferrier: ",
        r'Mukaiyama-Michael': "Use en dash (–) for Mukaiyama–Michael: ",
        r'Tsuji-Trost': "Use en dash (–) for Tsuji–Trost: ",
        r'Horner-Wadsworth-Emmons': "Use en dash (–) for Horner–Wadsworth–Emmons: ",
        r'Jorgensen-Hayashi': "Use en dash (–) and ø in Jørgensen–Hayashi: ",
        r'Jørgensen-Hayashi': "Use en dash (–) in Jørgensen–Hayashi: ",
        r'Ullmann-Goldberg': "Use en dash (–) for Ullmann–Goldberg: ",
        r'Chan-Lam': "Use en dash (–) for Chan–Lam: ",
        r'Hiyama-Denmark': "Use en dash (–) for Hiyama–Denmark: ",
        r'Negishi-Brown': "Use en dash (–) for Negishi–Brown: ",
        r'Corey-Fuchs': "Use en dash (–) for Corey–Fuchs: ",
        r'Wacker-Tsuji': "Use en dash (–) for Wacker–Tsuji: ",
        r'Stork-Danheiser': "Use en dash (–) for Stork–Danheiser: ",
        r'Balz-Schiemann': "Use en dash (–) for Balz–Schiemann: ",
        r'Barton-McCombie': "Use en dash (–) for Barton–McCombie: ",
        r'Knoevenagel-Doebner': "Use en dash (–) for Knoevenagel–Doebner: ",
        r'Gattermann-Koch': "Use en dash (–) for Gattermann–Koch: ",
        r'Mukaiyama-Mannich': "Use en dash (–) for Mukaiyama–Mannich: ",
        r'Evans-Tishchenko': "Use en dash (–) for Evans–Tishchenko: ",



        
        r'\b\d+(?:\.\d+)?\s*degree\b': "Use ° instead of 'degree': ",
        r'\b\d+(?:\.\d+)?\s*percent\b': "Use % instead of 'percent': ",
        r'\bvacuumed\b': "Use 'evacuated' or 'under vacuum' instead of 'vacuumed': ",

        r'\b[Hh]eated\s+up\b': "Omit 'up', use 'heated': ",
        r'\b[Cc]ooled\s+down\b': "Omit 'down', use 'cooled': ",
        r'\b[Ww]armed\s+up\b': "Omit 'up', use 'warmed': ",
        r'\b[Aa]bsorbed\s+on\b': "Check whether 'adsorbed on' is more appropriate: ",

        r'(\d)\s*x\s*(\d)': "Use × operator instead of letter x for multiplication ",
        r'->': "Use → instead of ->",
        r' MIN ': "Use min for minutes",
        r'vaccuum': "Misspelling of vacuum ",
        r'reduced vacuum': "Use 'reduced pressure' ",
        r'(\d)×(\d)': "Leave space before and after × operator ",
        r'mol×L': "Use mol·L ",
        r'g×mol': "Use g·mol ",
        r'J×K': "Use J·K ",
        r'J×mol': "Use J·mol ",
        r'g×L': "Use g·L ",
        r'g×L': "Use mg·mL ",
        r'mol\.L-1': "Use mol·L-1 ",
        r'mol\.mL': "Use mol·mL ",
        r'g\.mol': "Use g·mol ",
        r'J\.K': "Use J·K ",
        r'J\.mol': "Use J·mol ",
        r'g\.L-1': "Use g·L-1 ",
        r'g\.L-1': "Use mg·mL-1 ",

        #Stereochemistry 
        r'relative stereochemistry': "Use 'relative configuration' ",
        r'absolute stereochemistry': "Use 'absolute configuration' ",
        r'assigned stereochemistry': "Use assigned configuration ",
        r'he stereochemistry of': "the configuration of... might be better",
        r'he stereochemistry was': "the configuration was... might be better",
        r'he stereochemistry is': "the configuration is... might be better",
        r'of stereochemistry': "of the configuration... might be better",

        
    }

    results = []
    # Iterate over each pattern in the dictionary
    for pattern_str, message in patterns.items():
        regex = re.compile(pattern_str)
        for match in regex.finditer(text):
            # Get the start and end positions of the match
            start = max(0, match.start() - 5)  # Get up to 5 chars before match
            end = min(len(text), match.end() + 10)  # Get up to 10 chars after match

            # Extract the context
            context = text[start:end]

            # Store the warning message and the context
            results.append(f"{message}...{context}...")

    return results


def extract_text_from_pdf(pdf_file):
    """
    Extract text from a PDF file using fitz (PyMuPDF).

    Args:
        pdf_file: The uploaded PDF file object

    Returns:
        str: The extracted text from the PDF
    """
    try:
        # Create a byte stream from the uploaded file
        pdf_bytes = io.BytesIO(pdf_file.getvalue())

        # Open the PDF with fitz
        doc = fitz.open(stream=pdf_bytes, filetype="pdf")

        # Extract text from all pages
        text = ""
        for page_num in range(len(doc)):
            page = doc[page_num]
            text += page.get_text() + " "

        # Close the document
        doc.close()

        return text
    except Exception as e:
        st.error(f"Error extracting text from PDF: {str(e)}")
        return ""

def main():
    st.set_page_config(page_title="Chemistry Text Analyzer", page_icon="🧪", layout="wide")
    st.markdown(
    """
    <style>
    div.block-container {
    overflow-y: auto !important;
    }
    iframe {
    overflow: visible !important;
    }
    </style>
    """, unsafe_allow_html=True
    )
    st.title("Chemistry Text Analyzer")
    st.write("""
    This app analyzes chemistry text for common errors, inconsistencies, and formatting issues. 
    Upload a PDF file or paste your text in the box below to analyze it.
    """)
    # Create tabs for different input methods
    tab1, tab2 = st.tabs(["Upload PDF", "Text Input"])
    with tab1:
        uploaded_file = st.file_uploader("Choose a PDF file", type=['pdf'])
        analyze_pdf = st.button("Analyze PDF")
        if analyze_pdf and uploaded_file is not None:
            with st.spinner("Extracting text from PDF..."):
                text_content = extract_text_from_pdf(uploaded_file)
                if text_content:
                    st.success(f"Successfully extracted text from {uploaded_file.name}")
                    st.write("---")
                    analyze_content(text_content)
                else:
                    st.error("Failed to extract text from the PDF. Please check if the PDF contains extractable text.")
    with tab2:
        # Text input area
        text_input = st.text_area("Paste your text here:", height=300)
        analyze_text = st.button("Analyze Text")
        if analyze_text:
            if not text_input:
                st.warning("Please paste some text to analyze.")
            else:
                st.write("---")
                # Replace newlines with spaces to match the original behavior
                text_content = text_input.replace('\n', ' ')
                analyze_content(text_content)

def analyze_content(text_content):
    """
    Analyze the text content and display results.

    Args:
        text_content: The text to analyze
    """
    start_time = time.time()

    with st.spinner("Analyzing text..."):
        # Use expanders for each analysis type to keep the UI clean
        with st.expander("Text Format and Style Issues", expanded=True):
            text_issues = check_text(text_content)
            if text_issues:
                for issue in text_issues:
                    st.write(issue)
            else:
                st.write("No text format or style issues found.")


     


        # Language Issues - Separate expander, not nested
        with st.expander("Language Issues", expanded=True):
            language_issues = check_US_UK_consistency(text_content)
            if language_issues:
                for issue in language_issues:
                    st.markdown(issue)
            else:
                st.write("No US/UK spelling inconsistencies found.")
        

        
                

        with st.expander("Citation Analysis", expanded=True):
            # Transform citations (this returns the transformed text)
            transformed_text = transform_citations(text_content)
            if transformed_text != text_content:
                st.write("Citations were transformed to the proper format.")

            # Validate citations    
            citation_issues = validate_citation(text_content)
            if citation_issues:
                st.write("Citation issues found:")
                for issue in citation_issues:
                    st.write(issue)
            else:
                st.write("No citation issues found.")

    elapsed_time = time.time() - start_time
    st.write(f"Analysis completed in {elapsed_time:.2f} seconds.")


if __name__ == '__main__':
    main()