{"id":10504,"date":"2025-07-10T14:03:33","date_gmt":"2025-07-10T18:03:33","guid":{"rendered":"https:\/\/labs.icahn.mssm.edu\/minervalab\/?page_id=10504"},"modified":"2025-09-25T10:22:31","modified_gmt":"2025-09-25T14:22:31","slug":"open-ondemand","status":"publish","type":"page","link":"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/open-ondemand\/","title":{"rendered":"Open OnDemand"},"content":{"rendered":"<p>[et_pb_section bb_built=&#8221;1&#8243; admin_label=&#8221;section&#8221; _builder_version=&#8221;3.22&#8243; width=&#8221;100%&#8221;][et_pb_row admin_label=&#8221;row&#8221; _builder_version=&#8221;4.9.0&#8243; background_size=&#8221;initial&#8221; background_position=&#8221;top_left&#8221; background_repeat=&#8221;repeat&#8221;][et_pb_column type=&#8221;4_4&#8243; _builder_version=&#8221;3.25&#8243; custom_padding=&#8221;|||&#8221; custom_padding__hover=&#8221;|||&#8221;][et_pb_text admin_label=&#8221;Breadcrumb&#8221; _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; 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This product offers a fully compliant job management and desktop portal requiring minimal knowledge of Linux HPC environments and no end-user installation requirements other than an up-to-date web browser (Chrome or Firefox recommended).<\/p>\n<p><span style=\"color: #ff0000\">Please note that you will not be completely logged out of the Open OnDemand application until you both click on the logout icon and close the browser.<\/span><\/p>\n<p>[\/et_pb_text][et_pb_text _builder_version=&#8221;4.27.4&#8243; header_text_color=&#8221;#221f72&#8243; header_2_text_color=&#8221;#221f72&#8243; header_5_text_color=&#8221;#221f72&#8243; background_size=&#8221;initial&#8221; background_position=&#8221;top_left&#8221; background_repeat=&#8221;repeat&#8221; custom_margin=&#8221;20px||20px||false|false&#8221; custom_padding=&#8221;20px||20px||false|false&#8221; hover_enabled=&#8221;0&#8243; sticky_enabled=&#8221;0&#8243; background_pattern_color=&#8221;rgba(0,0,0,0.2)&#8221; background_mask_color=&#8221;#ffffff&#8221; 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box_shadow_vertical_tablet=&#8221;0px&#8221; box_shadow_blur_tablet=&#8221;40px&#8221; box_shadow_spread_tablet=&#8221;0px&#8221; vertical_offset_tablet=&#8221;0&#8243; horizontal_offset_tablet=&#8221;0&#8243; z_index_tablet=&#8221;0&#8243;]<\/p>\n<h2>Getting Started<\/h2>\n<h5>Authentication<\/h5>\n<p>To authenticate into Open OnDemand, please use the same email address you entered in your OnDemand Profile on the annual form webpage (<a href=\"https:\/\/forms.hpc.mssm.edu\/\">https:\/\/forms.hpc.mssm.edu\/<\/a>).<\/p>\n<p><strong>Minerva Training Video<\/strong> (available on campus network or VPN): <a href=\"https:\/\/scpublic.dmz.hpc.mssm.edu\/HPC\/ondemand\/OnDemand_Form.mp4\">Complete OnDemand Profile for OnDemand authentication<\/a>.<\/p>\n<p>[\/et_pb_text][et_pb_text _builder_version=&#8221;4.27.4&#8243; header_text_color=&#8221;#221f72&#8243; header_2_text_color=&#8221;#221f72&#8243; header_5_text_color=&#8221;#221f72&#8243; background_size=&#8221;initial&#8221; background_position=&#8221;top_left&#8221; 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header_4_text_shadow_blur_strength=&#8221;header_4_text_shadow_style,%91object Object%93&#8243; header_4_text_shadow_blur_strength_tablet=&#8221;1px&#8221; header_5_text_shadow_horizontal_length=&#8221;header_5_text_shadow_style,%91object Object%93&#8243; header_5_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; header_5_text_shadow_vertical_length=&#8221;header_5_text_shadow_style,%91object Object%93&#8243; header_5_text_shadow_vertical_length_tablet=&#8221;0px&#8221; header_5_text_shadow_blur_strength=&#8221;header_5_text_shadow_style,%91object Object%93&#8243; header_5_text_shadow_blur_strength_tablet=&#8221;1px&#8221; header_6_text_shadow_horizontal_length=&#8221;header_6_text_shadow_style,%91object Object%93&#8243; header_6_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; header_6_text_shadow_vertical_length=&#8221;header_6_text_shadow_style,%91object Object%93&#8243; header_6_text_shadow_vertical_length_tablet=&#8221;0px&#8221; header_6_text_shadow_blur_strength=&#8221;header_6_text_shadow_style,%91object Object%93&#8243; header_6_text_shadow_blur_strength_tablet=&#8221;1px&#8221; box_shadow_horizontal_tablet=&#8221;0px&#8221; box_shadow_vertical_tablet=&#8221;0px&#8221; box_shadow_blur_tablet=&#8221;40px&#8221; box_shadow_spread_tablet=&#8221;0px&#8221; vertical_offset_tablet=&#8221;0&#8243; horizontal_offset_tablet=&#8221;0&#8243; z_index_tablet=&#8221;0&#8243;]<\/p>\n<h4>Logging Into the Minerva Web Portal<\/h4>\n<p>Please note that new user home directories are not created until the first login using standard SSH. If you are new Minerva user be sure to connect via SSH before attempting to access Open OnDemand. Failing to do so will produce an error from Open OnDemand regarding the lack of home directory.<\/p>\n<ul>\n<li>Point your browser to <a href=\"https:\/\/ondemand.hpc.mssm.edu\/\" name=\"OnDemand web site\">https:\/\/ondemand.hpc.mssm.edu.<\/a><\/li>\n<li>Login with your Mount Sinai username\/password and multi-factor authentication device.<\/li>\n<\/ul>\n<h4 align=\"left\">Launching Interactive Desktop Job on a Compute Node<\/h4>\n<ul>\n<li>Click <span style=\"color: #009999\">Interactive Apps <\/span>&gt; <span style=\"color: #009999\">Chimera Desktop <\/span>on the menu bar.<\/li>\n<li>Select <span style=\"color: #009999\">OnDemand<\/span> queue for a desktop on the main cluster or<span style=\"color: #009999\"> Private<\/span> queue to start the desktop on your private node if you have one.\n<ul>\n<li>If <span style=\"color: #009999\">Private<\/span> queue selected, select the specific node on which to start your desktop. Selecting <span style=\"color: #009999\">First available <\/span>will start your desktop on the first Private node on which you are eligible to run.<\/li>\n<\/ul>\n<\/li>\n<li>Enter a valid Minerva <span style=\"color: #009999\">LSF project account.<\/span><\/li>\n<li><span style=\"color: #666699\">Choose<\/span> <span style=\"color: #009999\">number of cores <\/span><span style=\"color: #666699\">you require. (default is 1 core; maximum 48). All cores will be on the same node (hosts=1).<\/span><\/li>\n<li><span style=\"color: #666699\">Choose <\/span><span style=\"color: #009999\">memory per core in GB<\/span><span style=\"color: #000000\">\u00a0<span style=\"color: #666699\">(default is 1GB; maximum is 192GB; specifying 0GB indicates the full node).<\/span><\/span><\/li>\n<li>Choose <span style=\"color: #009999\">number of hours you require desktop<\/span> (default 1 hour; maximum 6 days).<\/li>\n<li>Select email notification if you&#8217;d like to know via email when the desktop begins to run.<\/li>\n<li>Click on <span style=\"color: #006666\"><span style=\"color: #008080\">Launch<\/span>.<\/span><\/li>\n<\/ul>\n<p><strong>Minerva Training Video<\/strong> (available on campus network or VPN): <a href=\"https:\/\/scpublic.dmz.hpc.mssm.edu\/HPC\/ondemand\/OnDemand_ChimeraDesktop.mp4\">Access Chimera Desktop on OnDemand for a GUI application<\/a>.<\/p>\n<p>Submissions will be queued in the special OnDemand queue and the status of the job will appear on the <span style=\"color: #006666\">My interactive Sessions <\/span>page (Automatically displayed). The status will change from<span style=\"color: #006666\"> Submitted t<\/span>o <span style=\"color: #006666\">Running<\/span> when the job starts and you will be notified via email if that option was selected.<\/p>\n<p>Click on <span style=\"color: #006666\">Launch Chimera Desktop <\/span>and he XFCE desktop will start up. The side tool bar (small arrow to left) allows one to send custom key commands and set connection parameters. A terminal emulator is available by clicking on the <span style=\"color: #006666\">Terminal<\/span> icon at the bottom.<\/p>\n<p style=\"padding-left: 40px\"><span style=\"color: #0000ff\">Navigating the <font>\/sc\/arion\/work<\/font>-folders can be slow. Significant speedup can be obtained by just typing in the sub-folder name, e.g., <font>\/sc\/arion\/work\/joeuser01<\/font>, in the navigation box on the header line.<\/span><\/p>\n<p>[\/et_pb_text][et_pb_text _builder_version=&#8221;4.9.0&#8243; header_text_color=&#8221;#221f72&#8243; header_2_text_color=&#8221;#221f72&#8243; header_5_text_color=&#8221;#221f72&#8243; background_size=&#8221;initial&#8221; background_position=&#8221;top_left&#8221; background_repeat=&#8221;repeat&#8221; custom_margin=&#8221;-28px|||||&#8221; custom_padding=&#8221;20px||||false|false&#8221;]<\/p>\n<h5>Other Servers Available<\/h5>\n<ul>\n<li>Code Server \u2013 A VS Code server<\/li>\n<li>Jupyter Server &#8211; Can provide a JupyterLab or Jupyter Notebook server, with GPU accelerators if required.<\/li>\n<li>Rstudio Server \u2013 Provides an Rstudio server environment.<\/li>\n<\/ul>\n<p>[\/et_pb_text][\/et_pb_column][\/et_pb_row][\/et_pb_section]<\/p>\n","protected":false},"excerpt":{"rendered":"<p>Scientific Computing and Data\u00a0\/\u00a0High Performance Computing \/ Documentation \/ Open OnDemand Open OnDemand The Scientific Computing and Data department has now installed the\u00a0NSF\u00a0supported\u00a0Open OnDemand service portal to access Minerva. This product offers a fully compliant job management and desktop portal requiring minimal knowledge of Linux HPC environments and no end-user installation requirements other than an [&hellip;]<\/p>\n","protected":false},"author":624,"featured_media":0,"parent":35,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_et_pb_use_builder":"on","_et_pb_old_content":"","_et_gb_content_width":"","footnotes":""},"class_list":["post-10504","page","type-page","status-publish","hentry"],"aioseo_notices":[],"_links":{"self":[{"href":"https:\/\/labs.icahn.mssm.edu\/minervalab\/wp-json\/wp\/v2\/pages\/10504","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/labs.icahn.mssm.edu\/minervalab\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/labs.icahn.mssm.edu\/minervalab\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/labs.icahn.mssm.edu\/minervalab\/wp-json\/wp\/v2\/users\/624"}],"replies":[{"embeddable":true,"href":"https:\/\/labs.icahn.mssm.edu\/minervalab\/wp-json\/wp\/v2\/comments?post=10504"}],"version-history":[{"count":14,"href":"https:\/\/labs.icahn.mssm.edu\/minervalab\/wp-json\/wp\/v2\/pages\/10504\/revisions"}],"predecessor-version":[{"id":12150,"href":"https:\/\/labs.icahn.mssm.edu\/minervalab\/wp-json\/wp\/v2\/pages\/10504\/revisions\/12150"}],"up":[{"embeddable":true,"href":"https:\/\/labs.icahn.mssm.edu\/minervalab\/wp-json\/wp\/v2\/pages\/35"}],"wp:attachment":[{"href":"https:\/\/labs.icahn.mssm.edu\/minervalab\/wp-json\/wp\/v2\/media?parent=10504"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}