{"id":35,"date":"2019-11-06T13:59:38","date_gmt":"2019-11-06T13:59:38","guid":{"rendered":"http:\/\/labs.icahn.mssm.edu\/minervalab\/?page_id=35"},"modified":"2025-10-06T14:40:31","modified_gmt":"2025-10-06T18:40:31","slug":"documentation","status":"publish","type":"page","link":"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/","title":{"rendered":"Minerva Supercomputer Documentation"},"content":{"rendered":"<p>[et_pb_section bb_built=&#8221;1&#8243; fullwidth=&#8221;on&#8221; _builder_version=&#8221;4.16&#8243; _module_preset=&#8221;default&#8221; global_colors_info=&#8221;{}&#8221; next_background_color=&#8221;#000000&#8243;][et_pb_fullwidth_menu admin_label=&#8221;Navigation Menu&#8221; menu_id=&#8221;15&#8243; menu_style=&#8221;centered&#8221; fullwidth_menu=&#8221;on&#8221; dropdown_menu_bg_color=&#8221;#221f72&#8243; dropdown_menu_line_color=&#8221;#221f72&#8243; dropdown_menu_active_link_color=&#8221;#d80b8c&#8221; _builder_version=&#8221;4.16&#8243; _module_preset=&#8221;default&#8221; menu_font=&#8221;|600|||||||&#8221; menu_text_color=&#8221;#FFFFFF&#8221; menu_font_size=&#8221;16px&#8221; background_color=&#8221;#221f72&#8243; background_layout=&#8221;dark&#8221; global_colors_info=&#8221;{}&#8221;]<\/p>\n<p>[\/et_pb_fullwidth_menu][\/et_pb_section][et_pb_section bb_built=&#8221;1&#8243; _builder_version=&#8221;4.16&#8243; global_colors_info=&#8221;{}&#8221; prev_background_color=&#8221;#000000&#8243;][et_pb_row _builder_version=&#8221;4.16&#8243; background_size=&#8221;initial&#8221; background_position=&#8221;top_left&#8221; background_repeat=&#8221;repeat&#8221; global_colors_info=&#8221;{}&#8221;][et_pb_column type=&#8221;4_4&#8243; _builder_version=&#8221;4.16&#8243; custom_padding=&#8221;|||&#8221; global_colors_info=&#8221;{}&#8221; custom_padding__hover=&#8221;|||&#8221;][et_pb_text admin_label=&#8221;Breadcrumb&#8221; _builder_version=&#8221;4.16&#8243; _module_preset=&#8221;default&#8221; hover_enabled=&#8221;0&#8243; global_colors_info=&#8221;{}&#8221; sticky_enabled=&#8221;0&#8243;]<\/p>\n<p><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/scientific-computing-and-data\/\">Scientific Computing and Data<\/a>\u00a0\/\u00a0<a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/\">High Performance Computing<\/a>\u00a0\/\u00a0Documentation<\/p>\n<p>[\/et_pb_text][et_pb_text _builder_version=&#8221;4.27.4&#8243; header_font=&#8221;|600|||||||&#8221; header_text_color=&#8221;#221f72&#8243; header_2_font_size=&#8221;24px&#8221; background_size=&#8221;initial&#8221; background_position=&#8221;top_left&#8221; background_repeat=&#8221;repeat&#8221; hover_enabled=&#8221;0&#8243; global_colors_info=&#8221;{}&#8221; sticky_enabled=&#8221;0&#8243; background_pattern_color=&#8221;rgba(0,0,0,0.2)&#8221; background_mask_color=&#8221;#ffffff&#8221; text_text_shadow_horizontal_length=&#8221;text_text_shadow_style,%91object Object%93&#8243; text_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; text_text_shadow_vertical_length=&#8221;text_text_shadow_style,%91object Object%93&#8243; text_text_shadow_vertical_length_tablet=&#8221;0px&#8221; text_text_shadow_blur_strength=&#8221;text_text_shadow_style,%91object Object%93&#8243; text_text_shadow_blur_strength_tablet=&#8221;1px&#8221; link_text_shadow_horizontal_length=&#8221;link_text_shadow_style,%91object Object%93&#8243; link_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; link_text_shadow_vertical_length=&#8221;link_text_shadow_style,%91object Object%93&#8243; link_text_shadow_vertical_length_tablet=&#8221;0px&#8221; link_text_shadow_blur_strength=&#8221;link_text_shadow_style,%91object Object%93&#8243; link_text_shadow_blur_strength_tablet=&#8221;1px&#8221; ul_text_shadow_horizontal_length=&#8221;ul_text_shadow_style,%91object Object%93&#8243; ul_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; ul_text_shadow_vertical_length=&#8221;ul_text_shadow_style,%91object Object%93&#8243; 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Object%93&#8243; quote_text_shadow_blur_strength_tablet=&#8221;1px&#8221; header_text_shadow_horizontal_length=&#8221;header_text_shadow_style,%91object Object%93&#8243; header_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; header_text_shadow_vertical_length=&#8221;header_text_shadow_style,%91object Object%93&#8243; header_text_shadow_vertical_length_tablet=&#8221;0px&#8221; header_text_shadow_blur_strength=&#8221;header_text_shadow_style,%91object Object%93&#8243; header_text_shadow_blur_strength_tablet=&#8221;1px&#8221; header_2_text_shadow_horizontal_length=&#8221;header_2_text_shadow_style,%91object Object%93&#8243; header_2_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; header_2_text_shadow_vertical_length=&#8221;header_2_text_shadow_style,%91object Object%93&#8243; header_2_text_shadow_vertical_length_tablet=&#8221;0px&#8221; header_2_text_shadow_blur_strength=&#8221;header_2_text_shadow_style,%91object Object%93&#8243; header_2_text_shadow_blur_strength_tablet=&#8221;1px&#8221; header_3_text_shadow_horizontal_length=&#8221;header_3_text_shadow_style,%91object Object%93&#8243; header_3_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; header_3_text_shadow_vertical_length=&#8221;header_3_text_shadow_style,%91object Object%93&#8243; header_3_text_shadow_vertical_length_tablet=&#8221;0px&#8221; header_3_text_shadow_blur_strength=&#8221;header_3_text_shadow_style,%91object Object%93&#8243; header_3_text_shadow_blur_strength_tablet=&#8221;1px&#8221; header_4_text_shadow_horizontal_length=&#8221;header_4_text_shadow_style,%91object Object%93&#8243; header_4_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; header_4_text_shadow_vertical_length=&#8221;header_4_text_shadow_style,%91object Object%93&#8243; header_4_text_shadow_vertical_length_tablet=&#8221;0px&#8221; 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<h1>Documentation Directory<\/h1>\n<ul>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/conda\/\">Conda<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/database-mariadb\/\">Database: MariaDB<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/file-transfer-globus\/\">File transfer: Globus and Others<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/gpgpu\/\">GPGPU and GPU Etiquette<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/lsf-job-scheduler\/\">Job Scheduling, Management, and Execution: LSF (Load Sharing Facility)<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/logging-in\/\">Logging In<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/access-tsm-with-command-line\/\">Long-term Data Archive: TSM<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/matlab\/\">MATLAB<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/open-ondemand\/\">Open OnDemand<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/python-and-jupyter-notebook\/\">Python and Jupyter Notebook<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/r\/\">R and RStudio<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/running-container-apptainer-singularity\/\">Running Container: Singularity<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/software-environment-lmod\/\">Software Environment: Lmod<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/storage-and-file-permission-management\/\">Storage and File Permission Management<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/software-build-and-compile-on-minerva\/\">Software Build and Compile on Minerva<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/web-services\/\">Web Application: Web Server<\/a><\/li>\n<li>Artificial intelligence (AI)\n<ul>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/ollama\/\">Ollama<\/a><\/li>\n<\/ul>\n<\/li>\n<\/ul>\n<ul>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation-new-york-states-empire-ai\/\">New York State&#8217;s Empire AI<\/a><\/li>\n<\/ul>\n<p>Supported by grant UL1TR004419 from the National Center for Advancing Translational Sciences, National Institutes of Health.<\/p>\n<p>[\/et_pb_text][\/et_pb_column][\/et_pb_row][\/et_pb_section]<\/p>\n","protected":false},"excerpt":{"rendered":"<p>Minerva Supercomputer Documentation Directory | Icahn School of Medicine at Mount Sinai<\/p>\n","protected":false},"author":415,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_et_pb_use_builder":"on","_et_pb_old_content":"<p>\u00a0<\/p><h2>\u00a0<\/h2><h2><span style=\"color: #221f72;\">Software and Packages<\/span><\/h2><ul><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/software-and-packages\/modules\/\">Modules<\/a><\/li><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/software-and-packages\/compiling\/\">Compiling<\/a><\/li><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/software-and-packages\/schrodinger-suite\/\">Schrodinger Suite<\/a><\/li><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/software-and-packages\/matlab\/\">MATLAB, Simulink and MATLAB Distributed Compute Server<\/a><\/li><\/ul><h2><span style=\"color: #221f72;\">Queues and Resources<\/span><\/h2><ul><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/lsf-queues\/\">LSF Queues And Policies<\/a><\/li><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/gpgpu\/\">GPGPU<\/a><\/li><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/gpu-etiquette\/\">GPU Etiquette<\/a><\/li><\/ul><h2><span style=\"color: #221f72;\">Job Submission<\/span><\/h2><ul><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/job-submission\/job-execution\/\">Job Execution<\/a><\/li><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/job-submission\/multiple-serial-jobs\/\">Multiple Serial Jobs<\/a><\/li><\/ul><h2><span style=\"color: #221f72;\">Directories<\/span><\/h2><ul><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/directories\/home-directories\/\">Home Directories<\/a><\/li><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/directories\/scratch-directories\/\">Scratch Directories<\/a><\/li><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/directories\/project-directories\/\">Project Directories<\/a><\/li><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/directories\/work-directories\/\">Work Directories<\/a><\/li><\/ul><h2><span style=\"color: #221f72;\">Rstudio<\/span><\/h2><ul><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/rstudio-jupyter-web\/\">Rstudio\/Jupyter Notebook Web<\/a><\/li><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/rstudio-connect-server\/\">Rstudio Connect Server<\/a><\/li><\/ul><h2>Services<\/h2><ul><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/services\/services\/data-transfer\/\">Data Transfer<\/a><ul><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/services\/globus-high-assurance-hipaa-file-manager\/\">Data Transfer with Globus HA\/HIPAA\/BAA<\/a><\/li><\/ul><\/li><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/services\/database-services\/\">Database Services<\/a><\/li><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/services\/web-services\/\">Web Services<\/a><\/li><li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/services\/archiving-data\/\">Archiving Data<\/a><\/li><\/ul>","_et_gb_content_width":"","footnotes":""},"class_list":["post-35","page","type-page","status-publish","hentry"],"aioseo_notices":[],"_links":{"self":[{"href":"https:\/\/labs.icahn.mssm.edu\/minervalab\/wp-json\/wp\/v2\/pages\/35","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\/415"}],"replies":[{"embeddable":true,"href":"https:\/\/labs.icahn.mssm.edu\/minervalab\/wp-json\/wp\/v2\/comments?post=35"}],"version-history":[{"count":79,"href":"https:\/\/labs.icahn.mssm.edu\/minervalab\/wp-json\/wp\/v2\/pages\/35\/revisions"}],"predecessor-version":[{"id":12402,"href":"https:\/\/labs.icahn.mssm.edu\/minervalab\/wp-json\/wp\/v2\/pages\/35\/revisions\/12402"}],"wp:attachment":[{"href":"https:\/\/labs.icahn.mssm.edu\/minervalab\/wp-json\/wp\/v2\/media?parent=35"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}