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thibaultdalmon / pandor

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error while crawling #1

Open ghost opened 4 years ago

ghost commented 4 years ago

Hi,

Hope you are all well !

I tried your script and after a couple of links crawled, I have the following error:

{"level":"info","ts":1591452016.8516092,"caller":"scrappers/arxiv.go:220","msg":"Finished https://export.arxiv.org/abs/1807.00051"}
{"level":"info","ts":1591452016.862218,"caller":"scrappers/arxiv.go:289","msg":"Adding https://export.arxiv.org/abs/1807.00052"}
{"level":"info","ts":1591452016.8622828,"caller":"scrappers/arxiv.go:203","msg":"Visiting https://export.arxiv.org/abs/1807.00052"}
{"level":"info","ts":1591452016.9891243,"caller":"scrappers/arxiv.go:220","msg":"Finished https://export.arxiv.org/abs/1301.0053"}
{"level":"fatal","ts":1591452017.0574367,"caller":"databases/graphdb.go:69","msg":"Transaction has been aborted. Please retry","stacktrace":"pandor/databases.AddArticle\n\t/home/ubuntu/lucmichalski/pandor/databases/graphdb.go:69\npandor/scrappers.LaunchArXiv.func1\n\t/home/ubuntu/lucmichalski/pandor/scrappers/arxiv.go:182\ngithub.com/gocolly/colly/v2.(*Collector).handleOnHTML.func1\n\t/home/ubuntu/go/pkg/mod/github.com/gocolly/colly/v2@v2.0.1/colly.go:990\ngithub.com/PuerkitoBio/goquery.(*Selection).Each\n\t/home/ubuntu/go/pkg/mod/github.com/!puerkito!bio/goquery@v1.5.1/iteration.go:10\ngithub.com/gocolly/colly/v2.(*Collector).handleOnHTML\n\t/home/ubuntu/go/pkg/mod/github.com/gocolly/colly/v2@v2.0.1/colly.go:980\ngithub.com/gocolly/colly/v2.(*Collector).fetch\n\t/home/ubuntu/go/pkg/mod/github.com/gocolly/colly/v2@v2.0.1/colly.go:639"}
exit status 1

What is happening ? Is it possible to fix it ?

Cheers, X

ghost commented 4 years ago 
models.Article{
  UID:            "0x11c",
  ArXivID:        "1209.0001",
  Title:          "An Improved Bound for the Nystrom Method for Large Eigengap",
  Abstract:       "We develop an improved bound for the approximation error of the Nystr\\\"{o}m\nmethod under the assumption that there is a large eigengap in the spectrum of\nkernel matrix. This is based on the empirical observation that the eigengap has\na significant impact on the approximation error of the Nystr\\\"{o}m method. Our\napproach is based on the concentration inequality of integral operator and the\ntheory of matrix perturbation. Our analysis shows that when there is a large\neigengap, we can improve the approximation error of the Nystr\\\"{o}m method from\n$O(N/m^{1/4})$ to $O(N/m^{1/2})$ when measured in Frobenius norm, where $N$ is\nthe size of the kernel matrix, and $m$ is the number of sampled columns.",
  SubmissionDate: 2012-08-30 00:00:00 UTC,
  CrawledAt:      2020-06-06 15:05:44 UTC,
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<a href=\"/list/cs/recent\">cs</a> &gt; arXiv:1209.0001</h1>\n<div id=\"search\">\n<form id=\"search-arxiv\" method=\"post\" action=\"/search_classic\">\n\n<div class=\"wrapper-search-arxiv\">\n<input class=\"keyword-field\" type=\"text\" name=\"query\" placeholder=\"Search or Article ID\"/>\n\n<div class=\"filter-field\">\n <select name=\"searchtype\">\n<option value=\"all\" selected=\"selected\">All papers</option>\n<option value=\"ti\">Titles</option>\n<option value=\"au\">Authors</option>\n<option value=\"abs\">Abstracts</option>\n<option value=\"ft\">Full text</option>\n</select>\n</div>\n<input class=\"btn-search-arxiv\" value=\"\" type=\"submit\">\n<div class=\"links\">(<a href=\"/help\">Help</a> | <a href=\"/find\">Advanced search</a>)</div>\n</div>\n</form>\n</div>\n</div>\n<div id=\"content\">\n\n<!--\n<rdf:RDF xmlns:rdf=\"http://www.w3.org/1999/02/22-rdf-syntax-ns#\"\n         xmlns:dc=\"http://purl.org/dc/elements/1.1/\"\n         xmlns:trackback=\"http://madskills.com/public/xml/rss/module/trackback/\">\n    <rdf:Description\n        rdf:about=\"http://arxiv.org/abs/1209.0001\"\n        dc:identifier=\"http://arxiv.org/abs/1209.0001\"\n        dc:title=\"An Improved Bound for the Nystrom Method for Large Eigengap\"\n        trackback:ping=\"http://arxiv.org/trackback/1209.0001\" />\n    </rdf:RDF>\n-->\n\n<div id=\"abs\">\n<div class=\"extra-services\">\n\n<div class=\"full-text\">\n<span class=\"descriptor\">Full-text links:</span>\n<h2>Download:</h2>\n<ul>\n<li><a href=\"/pdf/1209.0001\" accesskey=\"f\">PDF</a></li>\n<li><a href=\"/ps/1209.0001\">PostScript</a></li>\n<li><a href=\"/format/1209.0001\">Other formats</a></li>\n</ul>\n<div class=\"abs-license\">(<a href=\"http://arxiv.org/licenses/nonexclusive-distrib/1.0/\" title=\"Rights to this article\">license</a>)</div>\n</div><!--end full-text-->\n\n<div class=\"browse\">\n<h3>Current browse context:</h3>\n<div class=\"current\">stat.ML</div>\n<div class=\"prevnext\"><span class=\"arrow\"><a href=\"http://arxiv.org/prevnext?site=export.arxiv.org&amp;id=1209.0001&amp;context=stat.ML&amp;function=prev\" accesskey=\"p\" title=\"previous in stat.ML (accesskey p)\">&lt;&nbsp;prev</a></span>&nbsp;|&nbsp;<span class=\"arrow\"><a href=\"http://arxiv.org/prevnext?site=export.arxiv.org&amp;id=1209.0001&amp;context=stat.ML&amp;function=next\" accesskey=\"n\" title=\"next in stat.ML (accesskey n)\">next&nbsp;&gt;</a></span>\n<br /></div>\n<div class=\"list\"><a href=\"/list/stat.ML/new\">new</a>&nbsp;| <a href=\"/list/stat.ML/recent\">recent</a>&nbsp;| <a href=\"/list/stat.ML/1209\">1209</a></div><h3>Change to browse by:</h3><div class=\"switch\">\n<a href=\"/abs/1209.0001?context=cs\">cs</a><br />\n<span class=\"subclass\"><a href=\"/abs/1209.0001?context=cs.LG\">cs.LG</a></span><br />\n<span class=\"subclass\"><a href=\"/abs/1209.0001?context=math.NA\">math.NA</a></span><br />\n<a href=\"/abs/1209.0001?context=stat\">stat</a>\n</div>\n\n</div>\n<div class=\"extra-ref-cite\">\n<h3>References &amp; Citations</h3><ul><li><a href=\"http://adsabs.harvard.edu/cgi-bin/bib_query?arXiv:1209.0001\">NASA ADS</a></li>\n</ul>\n\n</div>\n<div class=\"bookmarks\">\n<div class=\"what-is-this\">\n<h3>Bookmark</h3> (<a href=\"/help/social_bookmarking\">what is this?</a>)\n</div>\n<a href=\"http://arxiv.org/ct?url=http%3A%2F%2Fwww.citeulike.org%2Fposturl%3Furl%3Dhttp%3A%2F%2Farxiv.org%2Fabs%2F1209.0001%26title%3DAn%2520Improved%2520Bound%2520for%2520the%2520Nystrom%2520Method%2520for%2520Large%2520Eigengap%26authors%3D&amp;v=ccf50faa\" title=\"Bookmark on CiteULike\"><img src=\"//static.arxiv.org/icons/social/citeulike.png\" alt=\"CiteULike logo\" /></a>\n<a href=\"http://arxiv.org/ct?url=http%3A%2F%2Fwww.bibsonomy.org%2FBibtexHandler%3FrequTask%3Dupload%26url%3Dhttp%3A%2F%2Farxiv.org%2Fabs%2F1209.0001%26description%3DAn%2520Improved%2520Bound%2520for%2520the%2520Nystrom%2520Method%2520for%2520Large%2520Eigengap&amp;v=87a6cdb5\" title=\"Bookmark on BibSonomy\"><img src=\"//static.arxiv.org/icons/social/bibsonomy.png\" alt=\"BibSonomy logo\" /></a>\n<a href=\"http://arxiv.org/ct?url=https%3A%2F%2Fwww.mendeley.com%2Fimport%2F%3Furl%3Dhttp%3A%2F%2Farxiv.org%2Fabs%2F1209.0001&amp;v=a42c630d\" title=\"Bookmark on Mendeley\"><img src=\"//static.arxiv.org/icons/social/mendeley.png\" alt=\"Mendeley logo\" /></a>\n<a href=\"http://arxiv.org/ct?url=https%3A%2F%2Fdel.icio.us%2Fpost%3Furl%3Dhttp%3A%2F%2Farxiv.org%2Fabs%2F1209.0001%26description%3DAn%2520Improved%2520Bound%2520for%2520the%2520Nystrom%2520Method%2520for%2520Large%2520Eigengap&amp;v=4babc94b\" title=\"Bookmark on del.icio.us\"><img src=\"//static.arxiv.org/icons/social/delicious.png\" alt=\"del.icio.us logo\" /></a>\n<a href=\"http://arxiv.org/ct?url=https%3A%2F%2Fdigg.com%2Fsubmit%3Furl%3Dhttp%3A%2F%2Farxiv.org%2Fabs%2F1209.0001%26title%3DAn%2520Improved%2520Bound%2520for%2520the%2520Nystrom%2520Method%2520for%2520Large%2520Eigengap&amp;v=0d190a36\" title=\"Bookmark on Digg\"><img src=\"//static.arxiv.org/icons/social/digg.png\" alt=\"Digg logo\" /></a>\n<a href=\"http://arxiv.org/ct?url=https%3A%2F%2Freddit.com%2Fsubmit%3Furl%3Dhttp%3A%2F%2Farxiv.org%2Fabs%2F1209.0001%26title%3DAn%2520Improved%2520Bound%2520for%2520the%2520Nystrom%2520Method%2520for%2520Large%2520Eigengap&amp;v=b53f4657\" title=\"Bookmark on Reddit\"><img src=\"//static.arxiv.org/icons/social/reddit.png\" alt=\"Reddit logo\" /></a>\n<a href=\"http://arxiv.org/ct?url=http%3A%2F%2Fsciencewise.info%2Fbookmarks%2Fadd%3Furl%3Dhttp%3A%2F%2Farxiv.org%2Fabs%2F1209.0001&amp;v=627ddfcc\" title=\"Bookmark on ScienceWISE\"><img src=\"//static.arxiv.org/icons/social/sciencewise.png\" alt=\"ScienceWISE logo\" /></a>\n\n</div>\n</div><!--end extra-services-->\n\n<div class=\"leftcolumn\">\n<div class=\"subheader\">\n<h1>Computer Science > Machine Learning</h1>\n</div>\n<h1 class=\"title mathjax\"><span class=\"descriptor\">Title:</span>\nAn Improved Bound for the Nystrom Method for Large Eigengap</h1>\n<div class=\"authors\"><span class=\"descriptor\">Authors:</span>\n<a href=\"/find/cs/1/au:+Mahdavi_M/0/1/0/all/0/1\">Mehrdad Mahdavi</a>, \n<a href=\"/find/cs/1/au:+Yang_T/0/1/0/all/0/1\">Tianbao Yang</a>, \n<a href=\"/find/cs/1/au:+Jin_R/0/1/0/all/0/1\">Rong Jin</a></div>\n<div class=\"dateline\">(Submitted on 30 Aug 2012)</div>\n<blockquote class=\"abstract mathjax\">\n<span class=\"descriptor\">Abstract:</span> We develop an improved bound for the approximation error of the Nystr\\\"{o}m\nmethod under the assumption that there is a large eigengap in the spectrum of\nkernel matrix. This is based on the empirical observation that the eigengap has\na significant impact on the approximation error of the Nystr\\\"{o}m method. Our\napproach is based on the concentration inequality of integral operator and the\ntheory of matrix perturbation. Our analysis shows that when there is a large\neigengap, we can improve the approximation error of the Nystr\\\"{o}m method from\n$O(N/m^{1/4})$ to $O(N/m^{1/2})$ when measured in Frobenius norm, where $N$ is\nthe size of the kernel matrix, and $m$ is the number of sampled columns.\n</blockquote>\n<!--CONTEXT-->\n<div class=\"metatable\">\n<table summary=\"Additional metadata\">\n<tr>\n<td class=\"tablecell label\">Subjects:\n</td>\n<td class=\"tablecell subjects\"><span class=\"primary-subject\">Machine Learning (cs.LG)</span>; Numerical Analysis (math.NA); Machine Learning (stat.ML)</td>\n</tr>\n<tr>\n<td class=\"tablecell label\">\nCite&nbsp;as:\n</td>\n<td class=\"tablecell arxivid\"><a href=\"/abs/1209.0001\">arXiv:1209.0001</a> [cs.LG]</td>\n</tr>\n<tr>\n<td class=\"tablecell label\">&nbsp;</td>\n<td class=\"tablecell arxividv\">(or <span class=\"arxivid\"><a href=\"/abs/1209.0001v1\">arXiv:1209.0001v1</a> [cs.LG]</span> for this version)</td>\n</tr>\n</table>\n</div>\n<div class=\"submission-history\">\n<h2>Submission history</h2>\nFrom: Mehrdad Mahdavi [<a href=\"https://arxiv.org/show-email/60c3ba82/1209.0001\">view email</a>]\n<br />\n<b>[v1]</b> Thu, 30 Aug 2012 20:40:06 GMT  (19kb)<br />\n</div>\n<div class=\"endorsers\"><a href=\"http://arxiv.org/auth/show-endorsers/1209.0001\">Which authors of this paper are endorsers?</a> | <a id=\"mathjax_toggle\" href=\"javascript:setMathjaxCookie()\">Disable MathJax</a> (<a href=\"/help/mathjax/\">What is MathJax?</a>) </div><script type=\"text/javascript\" language=\"javascript\">mathjaxToggle();</script>\n<script src=\"/bibex/bibex.js?20181009\" type=\"text/javascript\" defer></script>\n</div><!--end leftcolumn-->\n</div><!--end abs-->\n<p>Link back to: <a href=\"http://arXiv.org/\">arXiv</a>, <a href=\"http://arxiv.org/form\">form interface</a>, <a href=\"/help/contact\">contact</a>.</p>\n</div>\n</div>\n  <footer style=\"clear: both;\">\n    <div class=\"columns is-desktop\" role=\"navigation\" aria-label=\"Secondary\" style=\"margin: -0.75em -0.75em 0.75em -0.75em\">\n      <!-- Macro-Column 1 -->\n      <div class=\"column\" style=\"padding: 0;\">\n        <div class=\"columns\">\n          <div class=\"column\">\n            <ul style=\"list-style: none; 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  PDFURL:         "https://export.arxiv.org/pdf/1209.0001",
  OtherFormatURL: "https://export.arxiv.org/format/1209.0001",
  MetaURL:        "https://export.arxiv.org/abs/1209.0001?context=stat.ML",
  Authors:        []models.Author{
    models.Author{
      UID:   "0x11d",
      Name:  "Mahdavi_M",
      URL:   "https://export.arxiv.org/find/cs/1/au:+Mahdavi_M/0/1/0/all/0/1",
      DType: []string{
        "Author",
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    models.Author{
      UID:   "0x11e",
      Name:  "Yang_T",
      URL:   "https://export.arxiv.org/find/cs/1/au:+Yang_T/0/1/0/all/0/1",
      DType: []string{
        "Author",
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    },
    models.Author{
      UID:   "0x11f",
      Name:  "Jin_R",
      URL:   "https://export.arxiv.org/find/cs/1/au:+Jin_R/0/1/0/all/0/1",
      DType: []string{
        "Author",
      },
    },
  },
  CitedPapers: []models.Article{},
  DType:       []string{
    "Article",
  },
}
{"level":"fatal","ts":1591455944.9509234,"caller":"databases/graphdb.go:73","msg":"Transaction has been aborted. Please retry","stacktrace":"pandor/databases.AddArticle\n\t/home/ubuntu/lucmichalski/pandor/databases/graphdb.go:73\npandor/scrappers.LaunchArXiv.func2\n\t/home/ubuntu/lucmichalski/pandor/scrappers/arxiv.go:187\ngithub.com/gocolly/colly/v2.(*Collector).handleOnHTML.func1\n\t/home/ubuntu/go/pkg/mod/github.com/gocolly/colly/v2@v2.0.1/colly.go:990\ngithub.com/PuerkitoBio/goquery.(*Selection).Each\n\t/home/ubuntu/go/pkg/mod/github.com/!puerkito!bio/goquery@v1.5.1/iteration.go:10\ngithub.com/gocolly/colly/v2.(*Collector).handleOnHTML\n\t/home/ubuntu/go/pkg/mod/github.com/gocolly/colly/v2@v2.0.1/colly.go:980\ngithub.com/gocolly/colly/v2.(*Collector).fetch\n\t/home/ubuntu/go/pkg/mod/github.com/gocolly/colly/v2@v2.0.1/colly.go:639"}

a more detailed debug information on the issue.