forked from mkucej/i-librarian
/
file_top.php
528 lines (415 loc) · 24.4 KB
/
file_top.php
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<?php
include_once 'data.php';
include_once 'functions.php';
session_write_close();
database_connect(IL_DATABASE_PATH, 'library');
$shelf_files = array();
$shelf_files = read_shelf($dbHandle, $_GET['file']);
$desktop_projects = array();
$desktop_projects = read_desktop($dbHandle);
if (isset($_GET['select'])) {
if ($_GET['select'] != 'library' &&
$_GET['select'] != 'shelf' &&
$_GET['select'] != 'project' &&
$_GET['select'] != 'clipboard') {
$_GET['select'] = 'library';
}
$select = $_GET['select'];
} else {
$select = 'library';
}
if (isset($_GET['file'])) {
$query = $dbHandle->quote($_GET['file']);
// Read clipboard files.
attach_clipboard($dbHandle);
$clip_result = $dbHandle->query("SELECT id FROM clipboard.files WHERE id=$query");
$clip_files = $clip_result->fetchAll(PDO::FETCH_COLUMN);
$clip_result = null;
if (!isset($paper)) {
$result = $dbHandle->query("SELECT * FROM library WHERE id=$query LIMIT 1");
$paper = $result->fetch(PDO::FETCH_ASSOC);
}
if (!empty($paper['id'])) {
$paper['journal'] = htmlspecialchars($paper['journal']);
$paper['title'] = lib_htmlspecialchars($paper['title']);
$paper['abstract'] = lib_htmlspecialchars($paper['abstract']);
$paper['year'] = htmlspecialchars($paper['year']);
#######new date#########
$date = '';
if (!empty($paper['year'])) {
$date_array = array();
$date_array = explode('-', $paper['year']);
if (count($date_array) == 1) {
$date = $paper['year'];
} else {
if (empty($date_array[0]))
$date_array[0] = '1969';
if (empty($date_array[1]))
$date_array[1] = '01';
if (empty($date_array[2]))
$date_array[2] = '01';
$date = date('Y M j', mktime(0, 0, 0, $date_array[1], $date_array[2], $date_array[0]));
}
}
print '<div id="file-panel2"><div id="file-item-' . $paper['id'] . '" class="items alternating_row" data-file="' . $paper['file'] . '">';
print '<div class="titles file-title">' . $paper['title'] . '</div>';
$authors_string = '';
if (!empty($paper['authors'])) {
$array = explode(';', $paper['authors']);
$array = array_filter($array);
if (!empty($array)) {
foreach ($array as $author) {
$array2 = explode(',', $author);
$last = trim($array2[0]);
$last = substr($array2[0], 3, -1);
$first = '';
if (isset($array2[1])) {
$first = trim($array2[1]);
$first = substr($array2[1], 3, -1);
}
$new_authors[] = $last . ', ' . $first;
}
$authors_string = join('; ', $new_authors);
}
print PHP_EOL . '<div class="authors"><i class="author_expander fa fa-plus-circle"></i> ' . htmlspecialchars($authors_string) . '</div>';
}
if (!empty($paper['affiliation']))
print PHP_EOL . '<div class="authors"><i class="author_expander fa fa-plus-circle"></i> ' . htmlspecialchars($paper['affiliation']) . '</div>';
print '<i>';
if (!empty($paper['journal'])) {
print $paper['journal'];
} elseif (!empty($paper['secondary_title'])) {
print $paper['secondary_title'];
}
if (!empty($date))
print " ($date)";
if (!empty($paper['volume']))
print " <b>" . htmlspecialchars($paper['volume']) . "</b>";
if (!empty($paper['issue']))
print " (" . htmlspecialchars($paper['issue']) . ")";
if (!empty($paper['pages']))
print ": " . htmlspecialchars($paper['pages']) . ".";
if (!empty($paper['tertiary_title'])) {
print ', ' . $paper['tertiary_title'];
}
print "</i><br>";
if (isset($_SESSION['auth'])) {
print '<span><i class="star ' . (($paper['rating'] >= 1) ? 'ui-state-error-text' : 'ui-priority-secondary') . ' fa fa-star"></i>';
print ' <i class="star ' . (($paper['rating'] >= 2) ? 'ui-state-error-text' : 'ui-priority-secondary') . ' fa fa-star"></i>';
print ' <i class="star ' . (($paper['rating'] == 3) ? 'ui-state-error-text' : 'ui-priority-secondary') . ' fa fa-star"></i></span> ';
}
$result = $dbHandle->query("SELECT categoryID,category
FROM categories
WHERE categoryID IN (SELECT categoryID
FROM filescategories
WHERE fileID=$query)
ORDER BY category COLLATE NOCASE ASC");
while ($categories = $result->fetch(PDO::FETCH_ASSOC)) {
$category_array[] = htmlspecialchars($categories['category']);
}
if (empty($category_array[0]))
$category_array[0] = '!unassigned';
$category_string = join(", ", $category_array);
$category_array = null;
if (is_file(IL_PDF_PATH . DIRECTORY_SEPARATOR . get_subfolder($paper['file']) . DIRECTORY_SEPARATOR . $paper['file']) && isset($_SESSION['auth'])) {
if (isset($_SESSION['pdfviewer']) && $_SESSION['pdfviewer'] == 'external')
print ' <b>·</b> <a title="Open PDF in new window. Right-click to download it." href="' . htmlspecialchars('pdfcontroller.php?downloadpdf=1&file=' . urlencode($paper['file']) . '#pagemode=none&scrollbar=1&navpanes=0&toolbar=1&statusbar=0&page=1&view=FitH,0&zoom=page-width') . '" target="_blank" class="pdf_link">
<span class="ui-state-default" style="padding:0px 2px 0px 2px;margin-right:2px"> PDF </span></a>';
if (!isset($_SESSION['pdfviewer']) || (isset($_SESSION['pdfviewer']) && $_SESSION['pdfviewer'] == 'internal'))
print ' <b>·</b> <a title="Open PDF in new window. Right-click to download it." href="' . htmlspecialchars('pdfviewer.php?file=' . urlencode($paper['file']) . '&title=' . urlencode($paper['title'])) . '" target="_blank" class="pdf_link">
<span class="ui-state-default ui-corner-all" style="padding:0px 2px 0px 2px;margin-right:2px"> PDF </span></a>';
}
if (!empty($paper['doi'])) {
print ' <b>·</b> <a href="http://dx.doi.org/' . urlencode($paper['doi']) . '" target="_blank">Publisher Website</a>';
}
if (!empty($paper['url'])) {
$pmid_url = '';
$pmcid_url = '';
$nasaads_url = '';
$arxiv_url = '';
$jstor_url = '';
$pmid_related_url = '';
$pmid_citedby_pmc = '';
$nasa_related_url = '';
$nasa_citedby_pmc = '';
$other_urls = array();
$urls = explode("|", $paper['url']);
while (list($key, $url) = each($urls)) {
if (preg_match('/pubmed\.org/', $url)) {
$pmid_url = $url;
} elseif (preg_match('/pubmedcentral\.nih\.gov/', $url) || preg_match('/\/pmc\//', $url)) {
$pmcid_url = $url;
} elseif (preg_match('/adsabs\.harvard\.edu/', $url)) {
$nasaads_url = $url;
} elseif (preg_match('/arxiv\.org/', $url)) {
$arxiv_url = $url;
} elseif (preg_match('/jstor\.org/', $url)) {
$jstor_url = $url;
} else {
$other_urls[] = $url;
}
}
}
if (!empty($paper['uid'])) {
$uids = explode("|", $paper['uid']);
while (list($key, $uid) = each($uids)) {
if (preg_match('/PMID:/', $uid))
$pmid = preg_replace('/PMID:/', '', $uid);
if (preg_match('/NASAADS:/', $uid))
$nasaid = preg_replace('/NASAADS:/', '', $uid);
if (preg_match('/IEEE:/', $uid))
$ieeeid = preg_replace('/IEEE:/', '', $uid);
}
$uids = null;
}
if (!empty($pmid)) {
$pmid_related_url = 'http://www.ncbi.nlm.nih.gov/sites/entrez?db=pubmed&cmd=link&linkname=pubmed_pubmed&uid=' . $pmid;
$pmid_citedby_pmc = 'http://www.ncbi.nlm.nih.gov/pubmed?db=pubmed&cmd=link&linkname=pubmed_pubmed_citedin&uid=' . $pmid;
}
if (!empty($nasaid)) {
$nasa_related_url = 'http://adsabs.harvard.edu/cgi-bin/nph-abs_connect?return_req=no_params&text=' . urlencode($paper['abstract']) . '&title=' . urlencode($paper['title']);
$nasa_citedby_pmc = 'http://adsabs.harvard.edu/cgi-bin/nph-data_query?bibcode=' . $nasaid . '&link_type=CITATIONS';
}
if (!empty($ieeeid)) {
$ieee_url = 'http://ieeexplore.ieee.org/xpl/articleDetails.jsp?arnumber=' . $ieeeid;
}
if (!empty($pmid_url)) {
print " <b>·</b> <a href=\"" . htmlspecialchars($pmid_url) . "\" target=\"_blank\">PubMed</a>";
}
if (!empty($pmid_related_url)) {
print ' <b>·</b> <a href="' . htmlspecialchars($pmid_related_url) . '" target="_blank">
Related Articles</a>';
}
if (!empty($pmid_citedby_pmc)) {
print ' <b>·</b> <a href="' . htmlspecialchars($pmid_citedby_pmc) . '" target="_blank">
Cited by</a>';
}
if (!empty($pmcid_url)) {
print " <b>·</b> <a href=\"" . htmlspecialchars($pmcid_url) . "\" target=\"_blank\">PubMed Central</a>";
}
if (!empty($nasaads_url)) {
print " <b>·</b> <a href=\"" . htmlspecialchars($nasaads_url) . "\" target=\"_blank\">NASA ADS</a>";
}
if (!empty($nasa_related_url)) {
print ' <b>·</b> <a href="' . htmlspecialchars($nasa_related_url) . '" target="_blank" title="Related Articles">Related Articles</a>';
}
if (!empty($nasa_citedby_pmc)) {
print ' <b>·</b> <a href="' . htmlspecialchars($nasa_citedby_pmc) . '" target="_blank" title="Cited by">Cited by</a>';
}
if (!empty($arxiv_url)) {
print " <b>·</b> <a href=\"" . htmlspecialchars($arxiv_url) . "\" target=\"_blank\">arXiv</a>";
}
if (!empty($jstor_url)) {
print " <b>·</b> <a href=\"" . htmlspecialchars($jstor_url) . "\" target=\"_blank\">
JSTOR</a>";
}
if (!empty($ieee_url)) {
print ' <b>·</b> <a href="' . htmlspecialchars($ieee_url) . '" target="_blank">IEEE</a>';
}
if (!empty($other_urls)) {
foreach ($other_urls as $another_url) {
$url_host = htmlspecialchars(parse_url($another_url, PHP_URL_HOST));
print " <b>·</b> <a href=\"" . htmlspecialchars($another_url) . "\" target=\"_blank\" class=\"anotherurl\" title=\"$url_host\">Link</a>";
}
}
print '<div style="clear:both"></div>';
if (isset($_SESSION['auth'])) {
print ' <div class="noprint">';
if (isset($shelf_files) && in_array($paper['id'], $shelf_files)) {
print '<span class="update_shelf clicked"><i class="update_shelf fa fa-check-square ui-state-error-text"></i> Shelf </span>';
} else {
print '<span class="update_shelf"><i class="update_shelf fa fa-square-o"></i> Shelf </span>';
}
if (in_array($paper['id'], $clip_files)) {
print ' <span class="update_clipboard clicked"><i class="update_clipboard fa fa-check-square ui-state-error-text"></i> Clipboard </span>';
} else {
print ' <span class="update_clipboard"><i class="update_clipboard fa fa-square-o"></i> Clipboard </span>';
}
foreach ($desktop_projects as $desktop_project) {
$project_rowid = $dbHandle->query("SELECT ROWID FROM projectsfiles WHERE projectID=" . intval($desktop_project['projectID']) . " AND fileID=" . intval($paper['id']) . " LIMIT 1");
$project_rowid = $project_rowid->fetchColumn();
if (!empty($project_rowid))
print ' <span data-projid="' . $desktop_project['projectID']
. '" class="update_project clicked" style="white-space:pre;"><i class="update_project fa fa-check-square ui-state-error-text"></i> '
. htmlspecialchars($desktop_project['project']) . ' </span>';
if (empty($project_rowid))
print ' <span data-projid="' . $desktop_project['projectID']
. '" class="update_project" style="white-space:pre;"><i class="update_project fa fa-square-o"></i> '
. htmlspecialchars($desktop_project['project']) . ' </span>';
$project_rowid = null;
}
print ' </div>';
}
print '<div style="clear:both"></div>';
print " </div>";
$notes = null;
if (isset($_SESSION['auth'])) {
$user_query = $dbHandle->quote($_SESSION['user_id']);
$result = $dbHandle->query("SELECT notesID,notes FROM notes WHERE fileID=$query AND userID=$user_query LIMIT 1");
$fetched = $result->fetch(PDO::FETCH_ASSOC);
$result = null;
$notesid = $fetched['notesID'];
$notes = $fetched['notes'];
}
$url_filename = null;
$url_filenames = array();
if (isset($_SESSION['auth'])) {
$integer = sprintf("%05d", intval($paper['file']));
$files_to_display = glob(IL_SUPPLEMENT_PATH . DIRECTORY_SEPARATOR . get_subfolder($integer) . DIRECTORY_SEPARATOR . $integer . '*');
if (is_array($files_to_display)) {
foreach ($files_to_display as $supplementary_file) {
$extension = pathinfo($supplementary_file, PATHINFO_EXTENSION);
$isimage = null;
if ($extension == 'jpg' || $extension == 'jpeg' || $extension == 'gif' || $extension == 'png') {
$image_array = array();
$image_array = @getimagesize($supplementary_file);
$image_mime = $image_array['mime'];
if ($image_mime == 'image/jpeg' || $image_mime == 'image/gif' || $image_mime == 'image/png')
$isimage = true;
}
$isaudio = null;
if ($extension == 'ogg' || $extension == 'oga' || $extension == 'wav' || $extension == 'mp3' || $extension == 'm4a' || $extension == 'fla' || $extension == 'webma')
$isaudio = true;
$isvideo = null;
if ($extension == 'ogv' || $extension == 'webmv' || $extension == 'm4v' || $extension == 'flv')
$isvideo = true;
$in_browser = '<i class="fa fa-external-link" style="color:inherit;margin-right:0.5em;opacity:0.2"></i>';
if ($isimage || $isaudio || $isvideo || $extension == 'pdf') {
$in_browser = '<a href="' . htmlspecialchars('attachment.php?mode=inline&attachment=' . basename($supplementary_file)) . '" target="_blank">
<i class="fa fa-external-link" style="color:inherit;margin-right:0.5em"></i></a>';
}
$download_link = '<a href="' . htmlspecialchars('attachment.php?attachment=' . basename($supplementary_file)) . '">' . substr(basename($supplementary_file), 5, 50) . '</a>';
$url_filenames[] = $in_browser . $download_link;
}
$url_filename = join('<br>', $url_filenames);
}
}
$annotation = '';
if (isset($_SESSION['auth'])) {
$result = $dbHandle->query("SELECT annotation FROM annotations WHERE userID=" . intval($_SESSION['user_id']) . " AND filename='" . $paper['file'] . "' ORDER BY id ASC");
if (is_object($result)) {
while ($annotations = $result->fetch(PDO::FETCH_ASSOC)) {
$annotation .= '<div>' . htmlspecialchars($annotations['annotation']) . '</div><br>';
}
}
$result = null;
}
print '<div class="file-grid" style="border-bottom:0">
<div class="ui-dialog-titlebar ui-state-default" style="border:0">Abstract</div>
<div class="separator" style="margin:0"></div>
<div class="alternating_row abstract" style="padding:4px 10px;overflow:auto;height:220px;column-count:auto;-moz-column-count:auto;-webkit-column-count:auto">'
. $paper['abstract']
. '</div>
</div>
<div class="file-grid" style="border-bottom:0">
<div class="ui-dialog-titlebar ui-state-default" style="border:0;border-radius:0;">Notes</div>
<div class="separator" style="margin:0"></div>
<div class="alternating_row" id="file-top-notes" style="padding:4px 10px;height:220px;overflow:auto">' . $notes . '</div>
</div>
<div class="file-grid" style="width:33.33%;border-bottom:0;border-right:0">
<div class="ui-dialog-titlebar ui-state-default" style="border:0;border-radius:0">PDF Notes</div>
<div class="separator" style="margin:0"></div>
<div class="alternating_row" style="padding:4px 10px;overflow:auto;height:220px">' . $annotation . '</div>
</div>
<div class="file-grid" style="border-bottom:0">
<div class="ui-dialog-titlebar ui-state-default" style="border:0;border-radius:0">Graphical Abstract</div>
<div class="separator" style="margin:0"></div>
<div class="alternating_row" style="height:188px;overflow:auto">';
if (isset($_SESSION['auth']) && is_file(graphical_abstract($paper['file'])))
echo '<a href="' . htmlspecialchars('attachment.php?mode=inline&attachment='
. basename(graphical_abstract($paper['file']))) . '" target="_blank"><img src="'
. htmlspecialchars('attachment.php?mode=inline&attachment='
. basename(graphical_abstract($paper['file']))) . '" style="width:100%"></a>';
print '</div>
</div>
<div class="file-grid" style="border-bottom:0">
<div class="ui-dialog-titlebar ui-state-default" style="border:0;border-radius:0;position:relative">
Files
</div>
<div class="separator" style="margin:0"></div>
<div class="alternating_row" style="padding:4px 10px;overflow:auto;height:180px">';
if (is_file(IL_PDF_PATH . DIRECTORY_SEPARATOR . get_subfolder($paper['file']) . DIRECTORY_SEPARATOR . $paper['file']))
print '<a href="' . htmlspecialchars('pdfcontroller.php?downloadpdf=1&file=' . $paper['file']) . '" target="_blank">'
. '<i class="fa fa-external-link" style="color:inherit;margin-right:0.5em"></i></a>'
. '<a href="' . htmlspecialchars('pdfcontroller.php?downloadpdf=1&mode=download&file=' . $paper['file']) . '">' . $paper['file'] . '</a><br>';
print $url_filename . '</div>
</div>
<div class="file-grid" style="border-right:0;width:33.33%;border-bottom:0">
<div class="ui-dialog-titlebar ui-state-default" style="border:0;border-radius:0">IDs</div>
<div class="separator" style="margin:0"></div>
<div class="alternating_row" style="padding:4px 10px;overflow:auto;height:180px">';
print "<u>I, Librarian ID:</u> <a href=\"stable.php?id=$paper[id]\" target=\"_blank\">" . $paper['id'] . " (stable link)</a>";
$uid_array = explode("|", $paper['uid']);
foreach ($uid_array as $uid) {
$uids[] = $uid;
}
print "<br><u>External IDs:</u> " . htmlspecialchars(implode(", ", $uids));
print '<br><u>DOI:</u> <span id="file-doi">' . htmlspecialchars($paper['doi']) . '</span>';
if (empty($paper['bibtex'])) {
$bibtex_author = substr($paper['authors'], 3);
$bibtex_author = substr($bibtex_author, 0, strpos($bibtex_author, ',') - 1);
$bibtex_author = str_replace(array(' ', '{', '}'), '', $bibtex_author);
if (empty($bibtex_author))
$bibtex_author = 'unknown';
$bibtex_year = '0000';
$bibtex_year_array = explode('-', $paper['year']);
if (!empty($bibtex_year_array[0]))
$bibtex_year = $bibtex_year_array[0];
$paper['bibtex'] = utf8_deaccent($bibtex_author) . '-' . $bibtex_year . '-ID' . $paper['id'];
}
echo '<br><u>Citation Key:</u> <input type="text" size="' . (strlen($paper['bibtex']) + 2) . '" class="bibtex" value="{' . htmlspecialchars($paper['bibtex']) . '}" readonly>';
$editor_string = '';
if (!empty($paper['editor'])) {
$array = explode(';', $paper['editor']);
$array = array_filter($array);
if (!empty($array)) {
foreach ($array as $editor) {
$array2 = explode(',', $editor);
$last = trim($array2[0]);
$last = substr($array2[0], 3, -1);
$first = '';
if (isset($array2[1])) {
$first = trim($array2[1]);
$first = substr($array2[1], 3, -1);
}
$new_editor[] = $last . ', ' . $first;
}
$editor_string = join('; ', $new_editor);
}
}
print '</div>
</div>
<div class="file-grid">
<div class="ui-dialog-titlebar ui-state-default" style="border:0;border-radius:0">Categories</div>
<div class="separator" style="margin:0"></div>
<div class="alternating_row" style="padding:4px 10px;overflow:auto;height:160px">' . $category_string . '</div>
</div>
<div class="file-grid">
<div class="ui-dialog-titlebar ui-state-default" style="border:0;border-radius:0">Keywords</div>
<div class="separator" style="margin:0"></div>
<div class="alternating_row" style="padding:4px 10px;overflow:auto;height:160px">' . htmlspecialchars($paper['keywords']) . '</div>
</div>
<div class="file-grid" style="border-right:0;width:33.33%">
<div class="ui-dialog-titlebar ui-state-default" style="border:0;border-radius:0">Miscellaneous</div>
<div class="separator" style="margin:0"></div>
<div class="alternating_row" style="padding:4px 10px;overflow:auto;height:160px">
<u>Publication type:</u> ' . htmlspecialchars($paper['reference_type']);
if (!empty($paper['bibtex_type'])) {
echo ' (' . htmlspecialchars($paper['bibtex_type']) . ')';
}
echo '<br><u>Editor:</u> ' . htmlspecialchars($editor_string)
. '<br><u>Publisher:</u> ' . htmlspecialchars($paper['publisher'])
. '<br><u>Place published:</u> ' . htmlspecialchars($paper['place_published'])
. '<br><u>' . (!empty($_SESSION['custom1']) ? $_SESSION['custom1'] : 'Custom 1') . ':</u> ' . htmlspecialchars($paper['custom1'])
. '<br><u>' . (!empty($_SESSION['custom2']) ? $_SESSION['custom2'] : 'Custom 2') . ':</u> ' . htmlspecialchars($paper['custom2'])
. '<br><u>' . (!empty($_SESSION['custom3']) ? $_SESSION['custom3'] : 'Custom 3') . ':</u> ' . htmlspecialchars($paper['custom3'])
. '<br><u>' . (!empty($_SESSION['custom4']) ? $_SESSION['custom4'] : 'Custom 4') . ':</u> ' . htmlspecialchars($paper['custom4'])
. '</div>
</div>';
print '<div style="clear:both"></div><div style="padding:12px"><b>Added:</b> ' . date('F jS, Y', strtotime($paper['addition_date'])) . ' by ' . htmlspecialchars(get_username($dbHandle, $paper['added_by']));
if (!empty($paper['modified_date']))
print " <b>· Modified:</b> " . date("F jS, Y, g:i A", strtotime($paper['modified_date'])) . " by " . htmlspecialchars(get_username($dbHandle, $paper['modified_by']));
print '</div>';
print '<script type="text/javascript">$("title").text("' . $paper['title'] . '")</script>';
}
}