{"id":13857,"date":"2026-05-20T11:13:05","date_gmt":"2026-05-20T15:13:05","guid":{"rendered":"https:\/\/labs.icahn.mssm.edu\/minervalab\/?page_id=13857"},"modified":"2026-10-27T10:11:42","modified_gmt":"2026-10-27T14:11:42","slug":"cms-data","status":"publish","type":"page","link":"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/cms-data\/","title":{"rendered":"CMS Data"},"content":{"rendered":"<p>[et_pb_section fb_built=&#8221;1&#8243; fullwidth=&#8221;on&#8221; _builder_version=&#8221;4.16&#8243; _module_preset=&#8221;default&#8221; global_colors_info=&#8221;{}&#8221;][et_pb_fullwidth_menu menu_id=&#8221;15&#8243; menu_style=&#8221;centered&#8221; fullwidth_menu=&#8221;on&#8221; active_link_color=&#8221;#d80b8c&#8221; dropdown_menu_line_color=&#8221;#221f72&#8243; _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; sticky_position=&#8221;top&#8221; global_colors_info=&#8221;{}&#8221;][\/et_pb_fullwidth_menu][\/et_pb_section][et_pb_section fb_built=&#8221;1&#8243; _builder_version=&#8221;4.16&#8243; custom_padding=&#8221;0px||0px||false|false&#8221; global_colors_info=&#8221;{}&#8221;][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; custom_padding=&#8221;||0px||false|false&#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;4.27.4&#8243; _module_preset=&#8221;default&#8221; global_colors_info=&#8221;{}&#8221;]<\/p>\n<p><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/scientific-computing-and-data\/\">Scientific Computing and Data<\/a> \/ <a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/\">High Performance Computing<\/a> \/ <a title=\"Documentation\" href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/\">Documentation<\/a> \/ CMS Data<\/p>\n<p>[\/et_pb_text][\/et_pb_column][\/et_pb_row][\/et_pb_section][et_pb_section fb_built=&#8221;1&#8243; 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}||  .minerva-doc .doc-section summary { font-size: 21px; }||  .minerva-doc .eyebrow,||  .minerva-doc .intro-eyebrow { font-size: 21px; }||}&#8221; text_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; text_text_shadow_vertical_length_tablet=&#8221;0px&#8221; text_text_shadow_blur_strength_tablet=&#8221;1px&#8221; link_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; link_text_shadow_vertical_length_tablet=&#8221;0px&#8221; link_text_shadow_blur_strength_tablet=&#8221;1px&#8221; ul_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; ul_text_shadow_vertical_length_tablet=&#8221;0px&#8221; ul_text_shadow_blur_strength_tablet=&#8221;1px&#8221; ol_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; ol_text_shadow_vertical_length_tablet=&#8221;0px&#8221; ol_text_shadow_blur_strength_tablet=&#8221;1px&#8221; quote_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; quote_text_shadow_vertical_length_tablet=&#8221;0px&#8221; quote_text_shadow_blur_strength_tablet=&#8221;1px&#8221; header_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; header_text_shadow_vertical_length_tablet=&#8221;0px&#8221; header_text_shadow_blur_strength_tablet=&#8221;1px&#8221; header_2_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; header_2_text_shadow_vertical_length_tablet=&#8221;0px&#8221; header_2_text_shadow_blur_strength_tablet=&#8221;1px&#8221; header_3_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; header_3_text_shadow_vertical_length_tablet=&#8221;0px&#8221; header_3_text_shadow_blur_strength_tablet=&#8221;1px&#8221; header_4_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; header_4_text_shadow_vertical_length_tablet=&#8221;0px&#8221; header_4_text_shadow_blur_strength_tablet=&#8221;1px&#8221; header_5_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; header_5_text_shadow_vertical_length_tablet=&#8221;0px&#8221; header_5_text_shadow_blur_strength_tablet=&#8221;1px&#8221; header_6_text_shadow_horizontal_length_tablet=&#8221;0px&#8221; header_6_text_shadow_vertical_length_tablet=&#8221;0px&#8221; 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; global_colors_info=&#8221;{}&#8221; sticky_enabled=&#8221;0&#8243;]<\/p>\n<div class=\"minerva-doc\">\n<header class=\"site-header\"><span class=\"brand-tag\">HPC Documentation<\/span><\/p>\n<h1 class=\"brand-title\">CMS Controlled Data Access<\/h1>\n<\/header>\n<section class=\"intro\" id=\"overview\"><span class=\"intro-eyebrow\">Overview<\/span>The Minerva CMS environment operates as a distinct subset of the Minerva-Res cluster, strictly restricted to <strong>Research Identifiable File (RIF)<\/strong> and <strong>Limited Data Set (LDS)<\/strong> data from the Centers for Medicare &amp; Medicaid Services (CMS).<\/p>\n<p>To access this environment, researchers must provide an approved and active RIF or LDS Data Use Agreement (DUA) registered with the Mount Sinai Grants and Contracts Office (GCO), paired with a Minerva HPC Data Management Plan (DMP) Security Assessment Questionnaire (SAQ).<\/p>\n<div class=\"note\"><strong>Note:<\/strong> All fundamental connections\u2014including VPN requirements, SSH commands, MFA protocols, and Open OnDemand usage\u2014are identical to the standard Minerva-Res environment. Please reference the main <strong><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/minerva_restricted_cluster\/\">Minerva Restricted Cluster documentation<\/a><\/strong> for complete access instructions.<\/div>\n<\/section>\n<details class=\"doc-section\" id=\"projects-accounts\">\n<summary><span class=\"eyebrow\">1<\/span> Projects &amp; Accounts<\/summary>\n<div class=\"section-body\">\n<p>Before utilizing CMS resources, you must have an approved CMS project and an active Minerva-Res account.<\/p>\n<ul>\n<li><strong>Workflow &amp; Requirements:<\/strong> Please refer to the <strong><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/minerva_restricted_cluster\/\">Minerva Restricted Cluster documentation<\/a><\/strong> for the complete workflow and requirements for requesting a CMS project and a Minerva-Res account.<\/li>\n<\/ul>\n<div class=\"callout callout-warning\"><strong>Inactivity Lock:<\/strong> CMS user accounts are strictly audited and will be automatically locked after <strong>60 days of inactivity<\/strong> on Minerva. To reactivate a locked account, you must contact <a href=\"mailto:hpchelp@hpc.mssm.edu\">hpchelp@hpc.mssm.edu<\/a>.<\/div>\n<\/div>\n<\/details>\n<details class=\"doc-section\" id=\"logging-in\">\n<summary><span class=\"eyebrow\">2<\/span> Logging In<\/summary>\n<div class=\"section-body\">\n<p>Access to the CMS environment is routed through the main Minerva-Res entry points. Connections require the Mount Sinai campus network or VPN.<\/p>\n<h3>1. SSH Terminal Access<\/h3>\n<p>For command-line access, connect to the Minerva-Res login nodes using your standard Mount Sinai credentials and Microsoft Azure MFA.<\/p>\n<div class=\"code-block\">\n<div class=\"code-block-header\"><span class=\"code-lang\">Shell<\/span><\/div>\n<pre><code>ssh yourUserID@minerva-res.hpc.mssm.edu\n\n(yourUserID@minerva-res.hpc.mssm.edu) Password: &lt;Enter your Sinai School Password Only&gt;\nEnter Your Microsoft verification code&lt;609017&gt;<\/code><\/pre>\n<\/div>\n<h3>2. Open OnDemand Web Portal<\/h3>\n<p>For GUI and interactive applications (such as RStudio and Jupyter Notebook), access the web interface.<\/p>\n<ul>\n<li><strong>URL:<\/strong> Point your browser to <strong><a href=\"https:\/\/ondemand-res.hpc.mssm.edu\">https:\/\/ondemand-res.hpc.mssm.edu<\/a><\/strong><\/li>\n<li><strong>Authentication:<\/strong> Log in using the email and associated credentials you registered in your &#8216;OnDemand Profile&#8217; at <strong><a href=\"https:\/\/forms.hpc.mssm.edu\/\">https:\/\/forms.hpc.mssm.edu\/<\/a><\/strong>, followed by Microsoft Azure MFA.<\/li>\n<\/ul>\n<\/div>\n<\/details>\n<details class=\"doc-section\" id=\"storage\">\n<summary><span class=\"eyebrow\">3<\/span> CMS Storage &amp; Filesystem<\/summary>\n<div class=\"section-body\">\n<p>The CMS environment utilizes specific designated directories within the encrypted filesystem.<\/p>\n<h3>CMS Project Directory<\/h3>\n<ul>\n<li><strong>Path:<\/strong> <code>\/arionencrypt\/cmsdata\/<\/code><\/li>\n<li><strong>Allocation:<\/strong> A dedicated directory is provisioned for each approved project based on requested allocations.<\/li>\n<li><strong>Data Retention:<\/strong> Data in this path is <strong>NOT<\/strong> purged, but it is <strong>NOT backed up<\/strong>.<\/li>\n<li><strong>Chargeback:<\/strong> Following project approval, the PI or project delegate must complete the Minerva Storage Information Collection Form to provide fund information for chargebacks.<\/li>\n<\/ul>\n<h3>User Home Directory<\/h3>\n<ul>\n<li><strong>Path:<\/strong> <code>\/arionencrypt\/users\/<\/code><\/li>\n<li><strong>Quota:<\/strong> 30 GB standard quota.<\/li>\n<li><strong>Data Retention:<\/strong> Data in the home directory is not purged and is backed up. It should be used for configuration files and standard scripts.<\/li>\n<\/ul>\n<\/div>\n<\/details>\n<details class=\"doc-section\" id=\"data-transfer\">\n<summary><span class=\"eyebrow\">4<\/span> Data Transfer<\/summary>\n<div class=\"section-body\">\n<p>Because of strict CMS compliance requirements, standard self-service transfers are restricted.<\/p>\n<div class=\"callout callout-subtle\">\n<h3>Data Management Responsibilities<\/h3>\n<p>As outlined in <strong><a href=\"https:\/\/forms.hpc.mssm.edu\/\">Minerva Restricted Supercomputer Policies and Procedures<\/a><\/strong>, which all CMS users must agree to:<\/p>\n<ul>\n<li><strong>Principal Investigators (PIs)<\/strong> are responsible for the management and oversight of all project data, ensuring full compliance with Data Use Agreements (DUAs) and institutional policies.<\/li>\n<li><strong>Users<\/strong> must execute all controlled data transfers strictly in accordance with the applicable DUA, approved institutional procedures, and official user documentation.<\/li>\n<li><strong>The HPC Team<\/strong> provisions and maintains the Minerva-Res computational environment but does not conduct or manage controlled data transfers on behalf of users.<\/li>\n<\/ul>\n<\/div>\n<h3>Transfer Procedures<\/h3>\n<ul>\n<li><strong>Non-Controlled Data (Inbound \/ Outbound):<\/strong> Please follow the standard non-controlled data transfer procedure documented in the <strong><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/documentation\/minerva_restricted_cluster\/\">Minerva Restricted Cluster documentation<\/a><\/strong>.<\/li>\n<li><strong>Controlled Data (Inbound):<\/strong> Direct download from approved repositories only.\n<ul>\n<li>Requires the <a href=\"https:\/\/redcap.mountsinai.org\/redcap\/surveys\/?s=WFJFRN9HKWMM3LCA\">External Connectivity Request Form<\/a> (justification + source IP\/subnet).<\/li>\n<li>Security review: 2\u20133 weeks. Approved IPs are allow-listed for the transfer window only, then removed. Access is one-time only.<\/li>\n<li>Once approved, log in to <strong>OnDemand-Res<\/strong> and launch the <strong>Desktop<\/strong> app.<\/li>\n<li>Open a terminal session within the Desktop, run <code>ml firefox res_proxies<\/code>, and visit the approved data source website to complete the download.<\/li>\n<\/ul>\n<\/li>\n<li><strong>Controlled Data (Outbound):<\/strong> Users must document the exact transfer destination prior to movement. RIF and LDS data may <strong>only<\/strong> be transferred to another strictly vetted CMS-compliant environment. Contact <a href=\"mailto:hpchelp@hpc.mssm.edu\">hpchelp@hpc.mssm.edu<\/a> with justification to initiate a transfer.<\/li>\n<\/ul>\n<div class=\"note\"><strong>Note for CMS Data:<\/strong> If you are downloading Centers for Medicare &amp; Medicaid Services (CMS) Research Identifiable Files (RIF) or Limited Data Sets (LDS), please ensure you follow all procedures outlined in the <a href=\"https:\/\/scpublic.dmz.hpc.mssm.edu\/HPC\/cms\/CMS_Minerva_Res_Download_Checklist.pdf\" target=\"_blank\">CMS Minerva-Res Download Checklist<\/a>.<\/div>\n<\/div>\n<\/details>\n<details class=\"doc-section\" id=\"software-costs\">\n<summary><span class=\"eyebrow\">5<\/span> Software Licenses &amp; Chargebacks<\/summary>\n<div class=\"section-body\">\n<p>Use of the CMS environment and specific statistical packages are subject to standard licensing and chargeback models.<\/p>\n<div class=\"table-wrap\">\n<table>\n<thead>\n<tr>\n<th>Resource \/ Software<\/th>\n<th>Cost &amp; Details<\/th>\n<\/tr>\n<\/thead>\n<tbody>\n<tr>\n<td><strong>Standard Minerva Chargeback<\/strong><\/td>\n<td><strong>$155 per TB per year<\/strong>. Review the <a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/policies\/fee-and-schedule-policy\/\">Fee and Schedule Policy<\/a>.<\/td>\n<\/tr>\n<tr>\n<td><strong>SAS Software License<\/strong><\/td>\n<td><strong>$150 per activation<\/strong>. Requires the <a href=\"https:\/\/mountsinai.formstack.com\/forms\/sas_software_distribution_form_1\">SAS License Request Form<\/a>. (If you hold an active local SAS license, a separate purchase is not required).<\/td>\n<\/tr>\n<tr>\n<td><strong>STATA Software License<\/strong><\/td>\n<td><strong>User-provided<\/strong>. Users are responsible for obtaining their own valid STATA license. HPC provides technical installation assistance if needed.<\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<\/div>\n<\/div>\n<\/details>\n<\/div>\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 \/ High Performance Computing \/ Documentation \/ CMS Data HPC Documentation CMS Controlled Data Access OverviewThe Minerva CMS environment operates as a distinct subset of the Minerva-Res cluster, strictly restricted to Research Identifiable File (RIF) and Limited Data Set (LDS) data from the Centers for Medicare &amp; Medicaid Services (CMS). To [&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-13857","page","type-page","status-publish","hentry"],"aioseo_notices":[],"_links":{"self":[{"href":"https:\/\/labs.icahn.mssm.edu\/minervalab\/wp-json\/wp\/v2\/pages\/13857","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=13857"}],"version-history":[{"count":57,"href":"https:\/\/labs.icahn.mssm.edu\/minervalab\/wp-json\/wp\/v2\/pages\/13857\/revisions"}],"predecessor-version":[{"id":15453,"href":"https:\/\/labs.icahn.mssm.edu\/minervalab\/wp-json\/wp\/v2\/pages\/13857\/revisions\/15453"}],"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=13857"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}