array(4 items)
   caller => 'TYPO3\CMS\Core\Database\DatabaseConnection::exec_SELECTquery' (60 chars)
   ERROR => 'Disk full (/tmp/#sql_2d4_0.MAI); waiting for someone to free some space... (
      errno: 28 "No space left on device")' (112 chars)
   lastBuiltQuery => 'SELECT uid,title,tstamp,description,subtitle,tt_news_related_mm.tablenames F
      ROM pages,tt_news_related_mm WHERE tt_news_related_mm.uid_local=67
					AND 
      pages.uid=tt_news_related_mm.uid_foreign
					AND tt_news_related_mm.tablena
      mes='pages' AND pages.deleted=0 AND pages.t3ver_state<=0 AND pages.pid<>-1 A
      ND pages.hidden=0 AND pages.starttime<=1778724540 AND (pages.endtime=0 OR pa
      ges.endtime>1778724540) AND (pages.fe_group='' OR pages.fe_group IS NULL OR 
      pages.fe_group='0' OR FIND_IN_SET('0',pages.fe_group) OR FIND_IN_SET('-1',pa
      ges.fe_group)) ORDER BY title' (561 chars)
   debug_backtrace => '{closure}#34 // TYPO3\CMS\Frontend\Http\Application->run#33 // TYPO3\CMS\Cor
      e\Core\Bootstrap->handleRequest#78 // TYPO3\CMS\Frontend\Http\RequestHandler
      ->handleRequest#307 // TYPO3\CMS\Frontend\Page\PageGenerator::renderContent#
      216 // TYPO3\CMS\Frontend\ContentObject\ContentObjectRenderer->cObjGet#210 /
      / TYPO3\CMS\Frontend\ContentObject\ContentObjectRenderer->cObjGetSingle#805 
      // TYPO3\CMS\Frontend\ContentObject\ContentObjectRenderer->render#859 // TYP
      O3\CMS\Frontend\ContentObject\TemplateContentObject->render#943 // TYPO3\CMS
      \Frontend\ContentObject\ContentObjectRenderer->cObjGetSingle#130 // TYPO3\CM
      S\Frontend\ContentObject\ContentObjectRenderer->render#859 // TYPO3\CMS\Fron
      tend\ContentObject\ContentContentObject->render#943 // TYPO3\CMS\Frontend\Co
      ntentObject\ContentObjectRenderer->cObjGetSingle#97 // TYPO3\CMS\Frontend\Co
      ntentObject\ContentObjectRenderer->cObjGetSingle#841 // TYPO3\CMS\Frontend\C
      ontentObject\ContentObjectRenderer->render#859 // TYPO3\CMS\Frontend\Content
      Object\CaseContentObject->render#943 // TYPO3\CMS\Frontend\ContentObject\Con
      tentObjectRenderer->cObjGetSingle#44 // TYPO3\CMS\Frontend\ContentObject\Con
      tentObjectRenderer->cObjGetSingle#841 // TYPO3\CMS\Frontend\ContentObject\Co
      ntentObjectRenderer->render#859 // TYPO3\CMS\Frontend\ContentObject\FluidTem
      plateContentObject->render#943 // TYPO3\CMS\Frontend\ContentObject\FluidTemp
      lateContentObject->renderFluidView#102 // TYPO3\CMS\Fluid\View\AbstractTempl
      ateView->render#300 // FluidCache_Standalone_layout_HeaderContentFooter_05d5
      9c5fba40a9be0cd9c35811f049f6b1f89141->render#189 // TYPO3\CMS\Fluid\ViewHelp
      ers\RenderViewHelper::renderStatic#63 // TYPO3\CMS\Fluid\View\AbstractTempla
      teView->renderSection#121 // FluidCache_Standalone_template_file_List_b3143f
      34b80593375f84002a7d854de17fa1585e->section_040f06fd774092478d450774f5ba30c5
      da78acc8#230 // TYPO3\CMS\Fluid\Core\ViewHelper\AbstractViewHelper->initiali
      zeArgumentsAndRender#47 // TYPO3\CMS\Fluid\Core\ViewHelper\AbstractViewHelpe
      r->callRenderMethod#249 ...' (2981 chars)
array(4 items)
   caller => 'TYPO3\CMS\Core\Database\DatabaseConnection::exec_SELECTquery' (60 chars)
   ERROR => 'Disk full (/tmp/#sql_2d4_0.MAI); waiting for someone to free some space... (
      errno: 28 "No space left on device")' (112 chars)
   lastBuiltQuery => 'SELECT  uid, pid, title, short, datetime, archivedate, type, page, ext_url, 
      sys_language_uid, l18n_parent, tt_news_related_mm.tablenames, image, bodytex
      t FROM tt_news_related_mm, tt_news WHERE ((tt_news_related_mm.uid_local=67
	
      				AND tt_news.uid=tt_news_related_mm.uid_foreign
					AND tt_news_related_
      mm.tablenames!='pages')
					OR (tt_news_related_mm.uid_foreign=67
						AND
       tt_news.uid=tt_news_related_mm.uid_local
						AND tt_news_related_mm.table
      names!='pages')) AND tt_news.deleted=0 AND tt_news.t3ver_state<=0 AND tt_new
      s.pid<>-1 AND tt_news.hidden=0 AND tt_news.starttime<=1778724540 AND (tt_new
      s.endtime=0 OR tt_news.endtime>1778724540) AND (tt_news.fe_group='' OR tt_ne
      ws.fe_group IS NULL OR tt_news.fe_group='0' OR FIND_IN_SET('0',tt_news.fe_gr
      oup) OR FIND_IN_SET('-1',tt_news.fe_group)) ORDER BY datetime desc' (826 chars)
   debug_backtrace => '{closure}#34 // TYPO3\CMS\Frontend\Http\Application->run#33 // TYPO3\CMS\Cor
      e\Core\Bootstrap->handleRequest#78 // TYPO3\CMS\Frontend\Http\RequestHandler
      ->handleRequest#307 // TYPO3\CMS\Frontend\Page\PageGenerator::renderContent#
      216 // TYPO3\CMS\Frontend\ContentObject\ContentObjectRenderer->cObjGet#210 /
      / TYPO3\CMS\Frontend\ContentObject\ContentObjectRenderer->cObjGetSingle#805 
      // TYPO3\CMS\Frontend\ContentObject\ContentObjectRenderer->render#859 // TYP
      O3\CMS\Frontend\ContentObject\TemplateContentObject->render#943 // TYPO3\CMS
      \Frontend\ContentObject\ContentObjectRenderer->cObjGetSingle#130 // TYPO3\CM
      S\Frontend\ContentObject\ContentObjectRenderer->render#859 // TYPO3\CMS\Fron
      tend\ContentObject\ContentContentObject->render#943 // TYPO3\CMS\Frontend\Co
      ntentObject\ContentObjectRenderer->cObjGetSingle#97 // TYPO3\CMS\Frontend\Co
      ntentObject\ContentObjectRenderer->cObjGetSingle#841 // TYPO3\CMS\Frontend\C
      ontentObject\ContentObjectRenderer->render#859 // TYPO3\CMS\Frontend\Content
      Object\CaseContentObject->render#943 // TYPO3\CMS\Frontend\ContentObject\Con
      tentObjectRenderer->cObjGetSingle#44 // TYPO3\CMS\Frontend\ContentObject\Con
      tentObjectRenderer->cObjGetSingle#841 // TYPO3\CMS\Frontend\ContentObject\Co
      ntentObjectRenderer->render#859 // TYPO3\CMS\Frontend\ContentObject\FluidTem
      plateContentObject->render#943 // TYPO3\CMS\Frontend\ContentObject\FluidTemp
      lateContentObject->renderFluidView#102 // TYPO3\CMS\Fluid\View\AbstractTempl
      ateView->render#300 // FluidCache_Standalone_layout_HeaderContentFooter_05d5
      9c5fba40a9be0cd9c35811f049f6b1f89141->render#189 // TYPO3\CMS\Fluid\ViewHelp
      ers\RenderViewHelper::renderStatic#63 // TYPO3\CMS\Fluid\View\AbstractTempla
      teView->renderSection#121 // FluidCache_Standalone_template_file_List_b3143f
      34b80593375f84002a7d854de17fa1585e->section_040f06fd774092478d450774f5ba30c5
      da78acc8#230 // TYPO3\CMS\Fluid\Core\ViewHelper\AbstractViewHelper->initiali
      zeArgumentsAndRender#47 // TYPO3\CMS\Fluid\Core\ViewHelper\AbstractViewHelpe
      r->callRenderMethod#249 ...' (2946 chars)
Medical Informatics Laboratory

News

MILA-Seminar - SBMLtoOdin and Menelmacar: interactive visualisation of systems biology models for expert and non-expert audiences

Computational models in biology can increase our understanding of biological systems, be used to answer research questions, and make predictions. Accessibility and reusability of computational models is limited and often restricted to experts in programming and mathematics. This is due to the need to implement entire models and solvers from the mathematical notation models are normally presented as. We developed SBMLtoOdin, an R package that translates differential equation models in SBML format from the BioModels database into executable R code using the R package odin, allowing researchers to easily reuse models. We also developed Menelmacar, a web-based application that provides interactive visualisations of these models by solving their differential equations in the browser. This platform allows non-experts to simulate and investigate models using an easy-to-use interface.

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