{"id":15329,"date":"2025-03-28T21:54:50","date_gmt":"2025-03-29T01:54:50","guid":{"rendered":"https:\/\/ptp.cloud\/?p=15329"},"modified":"2025-08-12T03:13:31","modified_gmt":"2025-08-12T07:13:31","slug":"hpc-cluster-optimization-for-cancer-drug-discovery","status":"publish","type":"post","link":"https:\/\/ptp.cloud\/hpc-cluster-optimization-for-cancer-drug-discovery\/","title":{"rendered":"PTP in Action: Delivering Scalable HPC for Biotech Breakthroughs"},"content":{"rendered":"[et_pb_section fb_built=&#8221;1&#8243; custom_padding_last_edited=&#8221;on|tablet&#8221; admin_label=&#8221;Section&#8221; _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; background_color=&#8221;#3e489d&#8221; background_image=&#8221;https:\/\/ptp.cloud\/wp-content\/uploads\/2024\/10\/Square-Pattern-Hero-Background.png&#8221; custom_padding=&#8221;5px||5px||false|false&#8221; custom_padding_tablet=&#8221;40px||40px||true|false&#8221; custom_padding_phone=&#8221;40px||40px||true|false&#8221; 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_builder_version=&#8221;4.16&#8243; custom_padding=&#8221;64px||1px|||&#8221; da_disable_devices=&#8221;off|off|off&#8221; locked=&#8221;off&#8221; global_colors_info=&#8221;{}&#8221; da_is_popup=&#8221;off&#8221; da_exit_intent=&#8221;off&#8221; da_has_close=&#8221;on&#8221; da_alt_close=&#8221;off&#8221; da_dark_close=&#8221;off&#8221; da_not_modal=&#8221;on&#8221; da_is_singular=&#8221;off&#8221; da_with_loader=&#8221;off&#8221; da_has_shadow=&#8221;on&#8221;][et_pb_row make_equal=&#8221;on&#8221; _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; width=&#8221;85%&#8221; custom_padding=&#8221;2px||63px|||&#8221; global_colors_info=&#8221;{}&#8221; locked=&#8221;off&#8221;][et_pb_column type=&#8221;4_4&#8243; _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; global_colors_info=&#8221;{}&#8221;][et_pb_code _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; hover_enabled=&#8221;0&#8243; custom_css_free_form=&#8221;.executive-summary-container {||  background-color: #f0f0f0;||  border-radius: 8px;||  font-size: 22px;||  line-height: 1.6;||  overflow: hidden; \/* keeps rounded corners clean behind the header *\/||  padding: 30px 40px 30px 30px; \/* inner padding for all content *\/||}||||.executive-summary-header {||  background-color: #3e489d; \/* blue header *\/||  color: #fff;||  margin: -30px -40px 30px -30px; \/* pull header to edges, keep 30px gap below *\/||  padding: 10px 20px;||  font-weight: 600;||  font-size: 28px;||}||||\/* Tighter, consistent paragraph spacing *\/||.executive-summary-container p {||  margin: 0 0 1em 0;||}||.executive-summary-container p:last-of-type {||  margin-bottom: 0;||}||||\/* Included in case you add highlight boxes later *\/||.highlight-box {||  background-color: #fff;||  border: 1px solid #ccc;||  padding: 1.5em 1.5em 0em;||  border-radius: 5px;||}||.highlight-box h3 {||  font-size: 25px;||  color: #686868;||}||.highlight-box ul,||.highlight-box li {||  line-height: 1.6; \/* consistent spacing for bullets *\/||}||&#8221; global_colors_info=&#8221;{}&#8221; sticky_enabled=&#8221;0&#8243;]\n<div class=\"executive-summary-container\" aria-labelledby=\"executive-summary\"><!-- [et_pb_line_break_holder] -->  <\/p>\n<h2 id=\"executive-summary\" class=\"executive-summary-header\"><!-- [et_pb_line_break_holder] -->    Executive Summary<!-- [et_pb_line_break_holder] -->  <\/h2>\n<p><!-- [et_pb_line_break_holder] --><!-- [et_pb_line_break_holder] -->  <pee>A biotechnology company focused on cancer drug discovery partnered with PTP to modernize its High-Performance Computing (HPC) infrastructure. Facing fragmented environments, limited access to GPUs, and rising cloud costs, the company required a more scalable, efficient, and cost-effective platform to power its CRISPR-based and computational experiments.<\/pee><!-- [et_pb_line_break_holder] --><\/div>\n<p><!-- [et_pb_line_break_holder] -->[\/et_pb_code][et_pb_code _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; custom_margin=&#8221;53px|||||&#8221; hover_enabled=&#8221;0&#8243; custom_css_free_form=&#8221;.prob-state-container {||  font-size: 22px;||  line-height: 1.6;||}||||.prob-state-header {||  color: #3e489d;||  font-weight: 600;||  font-size: 28px;||}||||.prob-state-box {||  border: 1px solid #ccc;||  padding: 1.0em 0.5em 0em 1.5em;||  border-radius: 5px;||  margin-top: 20px;||}||||.prob-state-list,||.prob-state-list li {||  line-height: 1.6;||}||||.prob-state-closing {||  margin-top: 1.5em;||}||&#8221; global_colors_info=&#8221;{}&#8221; locked=&#8221;off&#8221; sticky_enabled=&#8221;0&#8243;]\n<div class=\"prob-state-container\"><!-- [et_pb_line_break_holder] -->  <\/p>\n<h2 id=\"problem-statement\" class=\"prob-state-header\"><!-- [et_pb_line_break_holder] -->    Problem Statement<!-- [et_pb_line_break_holder] -->  <\/h2>\n<p><!-- [et_pb_line_break_holder] --><!-- [et_pb_line_break_holder] -->  <pee><!-- [et_pb_line_break_holder] -->    The biotech company engaged PTP to refine and enhance their existing High-Performance Compute (HPC) environments. They were utilizing multiple HPC environments and doing so was not ideal. One instance was running on a single laptop and others were built by a member of the Computational Team who was no longer with the company. These environments were proving to be difficult to access and maintain.<!-- [et_pb_line_break_holder] -->  <\/pee><!-- [et_pb_line_break_holder] --><!-- [et_pb_line_break_holder] -->  <pee><!-- [et_pb_line_break_holder] -->    In order to assess the current environment, PTP\u2019s CloudOps Engineers:<!-- [et_pb_line_break_holder] -->  <\/pee><!-- [et_pb_line_break_holder] --><!-- [et_pb_line_break_holder] -->  <\/p>\n<div class=\"prob-state-box\"><!-- [et_pb_line_break_holder] -->    <\/p>\n<ul class=\"prob-state-list\"><!-- [et_pb_line_break_holder] -->      <\/p>\n<li>Documented and analyzed applications in use and applications the company wanted to use in the future.<\/li>\n<p><!-- [et_pb_line_break_holder] -->      <\/p>\n<li>Evaluated existing <a href=\"https:\/\/aws.amazon.com\/\" target=\"_blank\" rel=\"noopener noreferrer\">AWS<\/a> account structure and VPN access to research critical data sets.<\/li>\n<p><!-- [et_pb_line_break_holder] -->      <\/p>\n<li>Documented HPC account access and identified security gaps.<\/li>\n<p><!-- [et_pb_line_break_holder] -->      <\/p>\n<li>Gathered requirements for the efficient data flow between Contract Research Organizations (CROs) instruments and their <a href=\"https:\/\/aws.amazon.com\/s3\/\" target=\"_blank\" rel=\"noopener noreferrer\">AWS S3<\/a> environment.<\/li>\n<p><!-- [et_pb_line_break_holder] -->    <\/ul>\n<p><!-- [et_pb_line_break_holder] -->  <\/div>\n<p><!-- [et_pb_line_break_holder] --><\/div>\n<p><!-- [et_pb_line_break_holder] -->[\/et_pb_code][\/et_pb_column][\/et_pb_row][\/et_pb_section][et_pb_section fb_built=&#8221;1&#8243; custom_padding_last_edited=&#8221;on|tablet&#8221; next_background_color=&#8221;#ffffff&#8221; admin_label=&#8221;Section&#8221; _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; background_color=&#8221;#3e489d&#8221; background_image=&#8221;https:\/\/ptp.cloud\/wp-content\/uploads\/2024\/10\/Square-Pattern-Hero-Background.png&#8221; custom_padding=&#8221;||52px||false|false&#8221; custom_padding_tablet=&#8221;40px||40px||true|false&#8221; custom_padding_phone=&#8221;40px||40px||true|false&#8221; bottom_divider_style=&#8221;arrow&#8221; bottom_divider_height=&#8221;83px&#8221; da_disable_devices=&#8221;off|off|off&#8221; locked=&#8221;off&#8221; global_colors_info=&#8221;{}&#8221; da_is_popup=&#8221;off&#8221; da_exit_intent=&#8221;off&#8221; da_has_close=&#8221;on&#8221; da_alt_close=&#8221;off&#8221; da_dark_close=&#8221;off&#8221; da_not_modal=&#8221;on&#8221; da_is_singular=&#8221;off&#8221; da_with_loader=&#8221;off&#8221; da_has_shadow=&#8221;on&#8221;][et_pb_row make_equal=&#8221;on&#8221; _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; width=&#8221;85%&#8221; max_width=&#8221;1380px&#8221; custom_padding=&#8221;||99px|||&#8221; global_colors_info=&#8221;{}&#8221;][et_pb_column type=&#8221;4_4&#8243; module_class=&#8221;col-vert-cent&#8221; _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; global_colors_info=&#8221;{}&#8221;][et_pb_code _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; custom_css_free_form=&#8221;.sol-overview-container {||  font-size: 22px;||  line-height: 1.6;||  color: #ffffff;||  background-color: transparent;||}||||.sol-overview-header {||  color: #ffffff;||  font-weight: 600;||  font-size: 28px;||  margin-bottom: 0.5em;||}||||.sol-overview-box {||  background-color: transparent !important;||  border: 1px solid #ffffff;||  padding: 1.5em 1.5em 1.5em 1.5em;||  border-radius: 5px;||  margin: 1em 0 1.5em 0;||}||||.sol-overview-subheader {||  font-size: 25px;||  color: #ffffff !important;||}||||.sol-overview-list,||.sol-overview-list li {||  line-height: 1.6;||  color: #ffffff;||}||.sol-overview-caption {||  text-align: center;||  margin-top: 0.5em;||}||||.sol-overview-image {||  display: block;||  margin: auto;||  padding: 0em;||  max-width: 100%;||  height: auto;||}||&#8221; hover_enabled=&#8221;0&#8243; sticky_enabled=&#8221;0&#8243;]\n<section class=\"sol-overview-container\" aria-labelledby=\"hpc-solution-overview\"><!-- [et_pb_line_break_holder] -->  <\/p>\n<h2 id=\"solutions-overview\" class=\"sol-overview-header\">Solution Overview<\/h2>\n<p><!-- [et_pb_line_break_holder] --><!-- [et_pb_line_break_holder] -->  <pee>With the need for consistent Graphics Processing Units (GPU) availability, cost optimization, and acceptable performance as the end goal, PTP set out to build a hybrid-HPC Cluster leveraging physical infrastructure in a new datacenter and an integrated HPC Cluster in AWS.<\/pee><!-- [et_pb_line_break_holder] --><!-- [et_pb_line_break_holder] -->  <pee>As a starting point, PTP proposed an AWS best practice architecture with <a href=\"https:\/\/aws.amazon.com\/controltower\/\">Control Tower<\/a> as the foundation.  Control Tower ensures a multi-account strategy that takes into account governance and security throughout.  Based on discussions regarding cost optimization, PTP ran numerous scenarios with cost calculators and instance sizing and subsequent testing to provide the highest return for their cloud investment.<\/pee><!-- [et_pb_line_break_holder] --><!-- [et_pb_line_break_holder] -->  <\/p>\n<div class=\"sol-overview-box\"><!-- [et_pb_line_break_holder] -->    <\/p>\n<h3 class=\"sol-overview-subheader\"><strong>Hybrid HPC Clusters<\/strong><\/h3>\n<p><!-- [et_pb_line_break_holder] -->    <pee>With a desire for committed GPUs from the company\u2019s datacenter, PTP assisted with designing and building the high-speed connection between a remote colocation datacenter and AWS.<\/pee><!-- [et_pb_line_break_holder] --><!-- [et_pb_line_break_holder] -->    <\/p>\n<h3 class=\"sol-overview-subheader\"><strong>HPC Clusters in Multiple Availability Zones<\/strong><\/h3>\n<p><!-- [et_pb_line_break_holder] -->    <pee>The biotech company utilizes Slurm (Simple Linux Utility for Resource Management) for cluster management and job scheduling. With PTP\u2019s expertise, they leverage Slurm in AWS to manage jobs across multiple Availability Zones and Regions utilizing both Spot and On-Demand instances..  This optimizes AWS costs by spinning up and down resources intelligently throughout the course of the day and by increasing their ability to access Spot resources.<\/pee><!-- [et_pb_line_break_holder] --><!-- [et_pb_line_break_holder] -->    <\/p>\n<h3 class=\"sol-overview-subheader\"><strong>Cluster Maintenance<\/strong><\/h3>\n<p><!-- [et_pb_line_break_holder] -->    <pee>PTP converted legacy Slurm clusters deployed via <a href=\"https:\/\/aws.amazon.com\/hpc\/parallelcluster\/3\">AWS ParallelCluster<\/a> that were not actively maintained and centralized configurations to allow for efficient upgrades and changes as well as ongoing administration. PTP then re-templated the clusters to V3 from V2.<\/pee><!-- [et_pb_line_break_holder] --><!-- [et_pb_line_break_holder] -->    <\/p>\n<h3 class=\"sol-overview-subheader\"><strong>Cluster Expansion<\/strong><\/h3>\n<p><!-- [et_pb_line_break_holder] -->    <pee>Part of the process for GPU availability combined with AWS cost optimization was an expansion of clusters with decision making to determine which jobs should go to which resources.  PTP helped define the types of servers for the jobs and conduct right-typing and right-sizing.  Right-typing analyzes and benchmarks GPU versus non-GPUs for cost and performance.  Right-sizing analyzed and benchmarks different GPU types for cost and performance. <a href=\"https:\/\/aws.amazon.com\/batch\/\">AWS Batch<\/a> was utilized to quickly perform unit testing between different software versions and server hardware without the need for a dedicated cluster.<\/pee><!-- [et_pb_line_break_holder] -->  <\/div>\n<p><!-- [et_pb_line_break_holder] --><!-- [et_pb_line_break_holder] --><\/p>\n<figure><!-- [et_pb_line_break_holder] -->  <a href=\"https:\/\/aws.amazon.com\/marketplace\/seller-profile?id=40aef862-90e2-4a5f-9d98-2ef74b6cbf15\"><!-- [et_pb_line_break_holder] -->    <img decoding=\"async\" src=\"https:\/\/ptp.cloud\/wp-content\/uploads\/2025\/03\/aws-hpc-environment-with-ptp.jpg\" alt=\"Detailed AWS architecture diagram illustrating PTP's optimized HPC environment for a biotech company, including services like EC2, ParallelCluster, FSx, and S3 across multiple availability zones.\" class=\"sol-overview-image\"><!-- [et_pb_line_break_holder] -->  <\/a><!-- [et_pb_line_break_holder] --><figcaption class=\"sol-overview-caption\"><em>AWS HCP Environment<\/em><\/figcaption><!-- [et_pb_line_break_holder] --><\/figure>\n<p><!-- [et_pb_line_break_holder] -->  <\/p>\n<div class=\"sol-overview-box\"><!-- [et_pb_line_break_holder] -->    <\/p>\n<h3 class=\"sol-overview-subheader\"><strong>Storage Optimization <\/strong><\/h3>\n<p><!-- [et_pb_line_break_holder] -->    <pee>The company\u2019s existing clusters had been only leveraging <a href=\"https:\/\/aws.amazon.com\/fsx\/\">Amazon FSx<\/a> for Lustre because of the high-performance file system capabilities. PTP worked with the company to implement newer data compression methods on FSx to decrease the total amount of data being stored and assisted with configuring and leveraging both S3 and EFS for jobs that did not require the performance from FSx. Storage tiering is critical in cost containment and the PTP team was able to suggest ways to ensure the data was on the right tier at the right time at the lowest costs.<\/pee><!-- [et_pb_line_break_holder] --><!-- [et_pb_line_break_holder] -->    <\/p>\n<h3 class=\"sol-overview-subheader\"><strong>Image Builds<\/strong><\/h3>\n<p><!-- [et_pb_line_break_holder] -->    <pee>PTP assisted with converting all their software tools into machine images and rebuilding AMIs, including GROMACS for high-performance molecular dynamics and output analysis.  PTP then created specific versions to benchmark the performance and cost of versions against one another for further optimization.<\/pee><!-- [et_pb_line_break_holder] --><!-- [et_pb_line_break_holder] -->    <\/p>\n<h3 class=\"sol-overview-subheader\"><strong>Schr\u00f6dinger Software<\/strong><\/h3>\n<p><!-- [et_pb_line_break_holder] -->    <pee>The company leverages Schr\u00f6dinger as a computational platform for predicting molecular behavior. PTP configured Slurm to so the HPC cluster\u2019s compute nodes can check out licenses from Schr\u00f6dinger via Nginx port forwarding.<\/pee><!-- [et_pb_line_break_holder] --><!-- [et_pb_line_break_holder] -->    <\/p>\n<h3 class=\"sol-overview-subheader\"><strong>Scripting<\/strong><\/h3>\n<p><!-- [et_pb_line_break_holder] -->    <pee>PTP worked with the biotech company to develop scripts that facilitated running jobs on spot instances by enabling checkpointing and status checking. This allowed them to achieve greater cost efficiency while continuing to have access to high-end GPU and CPU server environments.<\/pee><!-- [et_pb_line_break_holder] -->  <\/div>\n<p><!-- [et_pb_line_break_holder] --><!-- [et_pb_line_break_holder] -->  <pee><strong>AWS services implemented as part of the solution:<\/strong><\/pee><!-- [et_pb_line_break_holder] -->  <pee><a data-start=\"62\" data-end=\"110\" rel=\"noopener\" target=\"_new\" class=\"\" href=\"https:\/\/aws.amazon.com\/codecommit\/\">CodeCommit<\/a>, <a data-start=\"112\" data-end=\"168\" rel=\"noopener\" target=\"_new\" class=\"\" href=\"https:\/\/aws.amazon.com\/cloudformation\/\">CloudFormation<\/a>, <a data-start=\"170\" data-end=\"218\" rel=\"noopener\" target=\"_new\" class=\"\" href=\"https:\/\/aws.amazon.com\/cloudwatch\/\">CloudWatch<\/a>, <a data-start=\"220\" data-end=\"268\" rel=\"noopener\" target=\"_new\" class=\"\" href=\"https:\/\/aws.amazon.com\/cloudtrail\/\">CloudTrail<\/a>, <a data-start=\"270\" data-end=\"310\" rel=\"noopener\" target=\"_new\" class=\"\" href=\"https:\/\/aws.amazon.com\/lambda\/\">Lambda<\/a>, <a data-start=\"312\" data-end=\"356\" rel=\"noopener\" target=\"_new\" class=\"\" href=\"https:\/\/aws.amazon.com\/config\/\">AWS Config<\/a>, <a data-start=\"358\" data-end=\"409\" rel=\"noopener\" target=\"_new\" class=\"\" href=\"https:\/\/aws.amazon.com\/autoscaling\/\">Auto Scaling<\/a>, <a data-start=\"411\" data-end=\"445\" rel=\"noopener\" target=\"_new\" class=\"\" href=\"https:\/\/aws.amazon.com\/iam\/\">IAM<\/a>, <a data-start=\"447\" data-end=\"491\" rel=\"noopener\" target=\"_new\" class=\"\" href=\"https:\/\/aws.amazon.com\/dynamodb\/\">DynamoDB<\/a>, <a data-start=\"493\" data-end=\"536\" rel=\"noopener\" target=\"_new\" class=\"\" href=\"https:\/\/aws.amazon.com\/route53\/\">Route 53<\/a>, <a data-start=\"538\" data-end=\"572\" rel=\"noopener\" target=\"_new\" class=\"\" href=\"https:\/\/aws.amazon.com\/vpc\/\">VPC<\/a>, <a data-start=\"574\" data-end=\"606\" rel=\"noopener\" target=\"_new\" class=\"\" href=\"https:\/\/aws.amazon.com\/s3\/\">S3<\/a>, <a data-start=\"608\" data-end=\"671\" rel=\"noopener\" target=\"_new\" class=\"\" href=\"https:\/\/docs.aws.amazon.com\/parallelcluster\/\">ParallelCluster<\/a>, <a data-start=\"673\" data-end=\"707\" rel=\"noopener\" target=\"_new\" class=\"\" href=\"https:\/\/aws.amazon.com\/ec2\/\">EC2<\/a>, <a data-start=\"709\" data-end=\"743\" rel=\"noopener\" target=\"_new\" class=\"\" href=\"https:\/\/aws.amazon.com\/ecs\/\">ECS<\/a>, and <a data-start=\"749\" data-end=\"797\" rel=\"noopener\" target=\"_new\" class=\"\" href=\"https:\/\/aws.amazon.com\/workspaces\/\">WorkSpaces<\/a>.<\/pee><!-- [et_pb_line_break_holder] --><\/section>\n<p><!-- [et_pb_line_break_holder] -->[\/et_pb_code][\/et_pb_column][\/et_pb_row][\/et_pb_section][et_pb_section fb_built=&#8221;1&#8243; admin_label=&#8221;section&#8221; _builder_version=&#8221;4.16&#8243; custom_padding=&#8221;32px||1px|||&#8221; da_disable_devices=&#8221;off|off|off&#8221; locked=&#8221;off&#8221; global_colors_info=&#8221;{}&#8221; da_is_popup=&#8221;off&#8221; da_exit_intent=&#8221;off&#8221; da_has_close=&#8221;on&#8221; da_alt_close=&#8221;off&#8221; da_dark_close=&#8221;off&#8221; da_not_modal=&#8221;on&#8221; da_is_singular=&#8221;off&#8221; da_with_loader=&#8221;off&#8221; da_has_shadow=&#8221;on&#8221;][et_pb_row make_equal=&#8221;on&#8221; _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; width=&#8221;85%&#8221; max_width=&#8221;1380px&#8221; custom_margin=&#8221;36px|auto||auto||&#8221; custom_padding=&#8221;2px||68px|||&#8221; global_colors_info=&#8221;{}&#8221;][et_pb_column type=&#8221;4_4&#8243; _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; global_colors_info=&#8221;{}&#8221;][et_pb_code _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; custom_css_free_form=&#8221;.conclusion-container {||  background-color: #f0f0f0;||  border-radius: 8px;||  font-size: 22px;||  line-height: 1.6;||  overflow: hidden; \/* keeps rounded corners clean behind the header *\/||  padding: 30px 40px 30px 30px; \/* inner padding for all content *\/||}||||.conclusion-header {||  background-color: #3e489d; \/* blue header *\/||  color: #fff;||  margin: -30px -40px 30px -30px; \/* pull header to edges, keep 30px gap below *\/||  padding: 10px 20px;||  font-weight: 600;||  font-size: 28px;||}||||\/* Tighter, consistent paragraph spacing *\/||.conclusion-container p {||  margin: 0 0 1em 0;||}||.conclusion-container p:last-of-type {||  margin-bottom: 0;||}||||\/* Highlight boxes inside conclusion *\/||.conclusion-container .highlight-box {||  background-color: #fff;||  border: 1px solid #ccc;||  padding: 1.5em 1.5em 0em;||  border-radius: 5px;||  margin-bottom: 1.5em;||}||||.conclusion-container .highlight-box h3 {||  font-size: 25px;||  color: #686868;||}||||.conclusion-container .highlight-box ul,||.conclusion-container .highlight-box li {||  line-height: 1.6; \/* consistent spacing for bullets *\/||}||&#8221; hover_enabled=&#8221;0&#8243; sticky_enabled=&#8221;0&#8243;]\n<div class=\"conclusion-container\"><!-- [et_pb_line_break_holder] -->  <\/p>\n<h2 id=\"conclusion\" class=\"conclusion-header\"><!-- [et_pb_line_break_holder] -->    The Outcome<!-- [et_pb_line_break_holder] -->  <\/h2>\n<p><!-- [et_pb_line_break_holder] --><!-- [et_pb_line_break_holder] -->  <pee>The primary objectives of the PTP engagement were to:<\/pee><!-- [et_pb_line_break_holder] --><!-- [et_pb_line_break_holder] -->  <\/p>\n<div class=\"highlight-box\"><!-- [et_pb_line_break_holder] -->    <\/p>\n<ul><!-- [et_pb_line_break_holder] -->      <\/p>\n<li>Improve overall manageability of HPC clusters<\/li>\n<p><!-- [et_pb_line_break_holder] -->      <\/p>\n<li>Determine access consistency of GPU instances in AWS<\/li>\n<p><!-- [et_pb_line_break_holder] -->      <\/p>\n<li>Address challenges with System access<\/li>\n<p><!-- [et_pb_line_break_holder] -->      <\/p>\n<li>Reduce administration time<\/li>\n<p><!-- [et_pb_line_break_holder] -->      <\/p>\n<li>Streamline workflow run time<\/li>\n<p><!-- [et_pb_line_break_holder] -->      <\/p>\n<li>Contain and lower AWS costs, particularly with GPU and FSx.<\/li>\n<p><!-- [et_pb_line_break_holder] -->    <\/ul>\n<p><!-- [et_pb_line_break_holder] -->  <\/div>\n<p><!-- [et_pb_line_break_holder] --><!-- [et_pb_line_break_holder] -->  <pee>Through PTP\u2019s CloudOps Engineering services, the company gained a trusted strategic partner and extension of their data science team\u2014able to respond rapidly to evolving design, architecture, and cloud management needs to keep pace with cutting-edge cancer research.<\/pee><!-- [et_pb_line_break_holder] --><\/div>\n<p><!-- [et_pb_line_break_holder] -->[\/et_pb_code][\/et_pb_column][\/et_pb_row][et_pb_row column_structure=&#8221;1_2,1_2&#8243; module_class=&#8221;vert-cent&#8221; _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; width=&#8221;85%&#8221; max_width=&#8221;1380px&#8221; custom_margin=&#8221;0px||0px||false|false&#8221; custom_padding=&#8221;0px||0px||false|false&#8221; locked=&#8221;off&#8221; global_colors_info=&#8221;{}&#8221;][et_pb_column type=&#8221;1_2&#8243; module_id=&#8221;contact&#8221; _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; global_colors_info=&#8221;{}&#8221;][et_pb_image src=&#8221;https:\/\/ptp.cloud\/wp-content\/uploads\/2024\/12\/Graphs-Isometric-Contained-Icon.png&#8221; alt=&#8221;Graphs Isometric Contained Icon&#8221; title_text=&#8221;Graphs Isometric Contained Icon&#8221; show_bottom_space=&#8221;off&#8221; disabled_on=&#8221;on|off|off&#8221; _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; width_tablet=&#8221;200px&#8221; width_phone=&#8221;150px&#8221; width_last_edited=&#8221;on|phone&#8221; custom_margin=&#8221;|||-20px|false|false&#8221; global_colors_info=&#8221;{}&#8221;][\/et_pb_image][et_pb_heading title=&#8221;Explore PTP\u2019s CloudOps Services on AWS Marketplace&#8221; _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; title_level=&#8221;h2&#8243; title_font=&#8221;&#8211;et_global_heading_font|600|||||||&#8221; title_text_align=&#8221;left&#8221; title_text_color=&#8221;gcid-0e52a8f4-5dfd-4102-9f40-fd354ef9edd5&#8243; title_font_size=&#8221;2.88rem&#8221; title_line_height=&#8221;1.2em&#8221; max_width_tablet=&#8221;100%&#8221; max_width_phone=&#8221;300px&#8221; max_width_last_edited=&#8221;on|phone&#8221; custom_margin=&#8221;15px||5px||false|false&#8221; locked=&#8221;off&#8221; global_colors_info=&#8221;{%22gcid-0e52a8f4-5dfd-4102-9f40-fd354ef9edd5%22:%91%22title_text_color%22%93}&#8221;][\/et_pb_heading][et_pb_text _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; text_font=&#8221;Ubuntu||||||||&#8221; text_text_color=&#8221;#000000&#8243; text_font_size=&#8221;1.25rem&#8221; text_line_height=&#8221;1.75rem&#8221; max_width=&#8221;620px&#8221; hover_enabled=&#8221;0&#8243; locked=&#8221;off&#8221; global_colors_info=&#8221;{}&#8221; sticky_enabled=&#8221;0&#8243;]\n<p data-start=\"272\" data-end=\"422\" class=\"\" style=\"text-align: left;\">Accelerate your HPC performance, optimize costs, and scale securely with expert cloud management.<span style=\"color: #000000;\"> <a data-start=\"250\" data-end=\"395\" rel=\"noopener\" target=\"_new\" class=\"\" href=\"https:\/\/aws.amazon.com\/marketplace\/pp\/prodview-it7fjq6rqix74?sr=0-16&amp;ref_=beagle&amp;applicationId=AWSMPContessa\" style=\"color: #000000;\">Visit our AWS Marketplace listing<\/a> <\/span>to get started.<\/p>\n[\/et_pb_text][\/et_pb_column][et_pb_column type=&#8221;1_2&#8243; _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; background_color=&#8221;#2f348d&#8221; custom_padding=&#8221;60px|60px|25px|60px|false|true&#8221; custom_padding_tablet=&#8221;60px|60px|25px|60px|false|true&#8221; custom_padding_phone=&#8221;30px|30px|0px|30px|false|true&#8221; custom_padding_last_edited=&#8221;on|tablet&#8221; border_radii=&#8221;on|10px|10px|10px|10px&#8221; global_colors_info=&#8221;{}&#8221;][et_pb_text _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; text_font=&#8221;Ubuntu||||||||&#8221; text_text_color=&#8221;#FFFFFF&#8221; text_font_size=&#8221;18px&#8221; text_line_height=&#8221;1.4em&#8221; header_2_font=&#8221;Ubuntu|500|||||||&#8221; header_2_text_color=&#8221;#FFFFFF&#8221; header_2_font_size=&#8221;38px&#8221; header_2_line_height=&#8221;1.2em&#8221; global_colors_info=&#8221;{}&#8221;]\n<h2 class=\"form-h2\" style=\"text-align: center;\">Unlock the Full Potential of Your HPC Environment<\/h2>\n<p data-start=\"117\" data-end=\"267\" class=\"\">Partner with PTP to optimize performance, reduce cloud costs, and accelerate your research. <span><strong>Contact us today<\/strong><\/span><span> to learn how we can accelerate your workflows and enhance productivity.<\/span><\/p>\n[\/et_pb_text][et_pb_code _builder_version=&#8221;4.27.4&#8243; _module_preset=&#8221;default&#8221; hover_enabled=&#8221;0&#8243; global_colors_info=&#8221;{}&#8221; sticky_enabled=&#8221;0&#8243;]<div class=\"frm_forms  with_frm_style frm_style_formidable-style\" id=\"frm_form_2_container\" >\n<form enctype=\"multipart\/form-data\" method=\"post\" class=\"frm-show-form  frm_js_validate  frm_ajax_submit  frm_pro_form \" id=\"form_homepage-contact-us\" >\n<div class=\"frm_form_fields \">\n<fieldset>\n<legend class=\"frm_screen_reader\">Homepage Contact Us<\/legend>\r\n\r\n<div class=\"frm_fields_container\">\n<input type=\"hidden\" name=\"frm_action\" value=\"create\" \/>\n<input type=\"hidden\" name=\"form_id\" value=\"2\" \/>\n<input type=\"hidden\" name=\"frm_hide_fields_2\" id=\"frm_hide_fields_2\" value=\"\" \/>\n<input type=\"hidden\" name=\"form_key\" 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Visit our AWS Marketplace listing to get started.Unlock the Full Potential of Your HPC Environment Partner with PTP to optimize performance, reduce cloud costs, and accelerate your research. Contact us today to learn how we can accelerate your workflows and enhance productivity.Please select a valid form<\/p>\n","protected":false},"author":445,"featured_media":15464,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"_et_pb_use_builder":"on","_et_pb_old_content":"<p>In the fascinating and high-stakes domain of biotechnology, research validation and acquisition of the next wave of funding stand as crucial checkpoints in the journey of a startup. Amid an environment characterized by escalating scrutiny and disturbing reports of manipulated outcomes, it becomes critical to build an infrastructure that is not only efficient but also transparent and reliable. Our client in the startup life sciences space needed to build out their environment for informatics on AWS while requiring PTP help significantly expedite the research process and, most importantly, validate its authenticity.<\/p><p>The primary goal in fortifying the validity of research is in streamlining and automating the data processing pipelines. The science required the expertise to support scaling homegrown pipelines, industry-leading solutions such as Nextflow, which provides a scalable and reproducible scientific workflow using software containers, as well as open-source conglomerates like Cell Ranger, Seurat, Picard, and Star Aligner, which have shown proven results in genomics and computational biology. This client demanded a cloud pipeline solution that was automated, repeatable, easily changeable and fully documents to ensure research validation. These solutions, when interlaced with robust AWS offerings like EC2, ELB, Auto Scaling, Lambda, and Fargate, create a scalable, cost-efficient, and high-throughput data processing solution that stands all the major test of validation.<\/p><p>PTP leveraged EC2 Image Builder and Service Catalogs to produce images in a controlled and repeatable manner. This allows for scientists and informaticians to independently launch pipelines through Service Catalog. These users have limited permissions to just launch Service Catalog everything else is controlled through the code process and permissions are minimized by the security group for control.<\/p><p>PTP centralized the building of images in one account and that account shares across the organization into those required accounts which exchange information between accounts with Amazon Parameter Store.<\/p><p>Image building was automated using EC2 Image Builder allowing PTP to build different standard images for different functions. From there the team created a recipe in Image Builder containing the software components that make up the image and defines the ownership of the component. This provides complete documentation on what software and versions are installed, which in life sciences is essential for controlling variables and seeking research validation. This Build account has access to private and controlled code repositories so that software version can be frozen or recreated from any point in time<\/p><p>These builds were all written into Terraform to maintain the image files and component lists and version controlled by AWS Code Commit. As components change in Terraform, for example a software update to \u201cversion 4.2\u201d, Terraform will know the file has changed and will deploy a new version of the component which then creates a new version of the recipe in Image Builder.<\/p><p>For cost optimization, the Service Catalog services are tied to Cloudwatch events that trigger when devices go idle, then SQS queue and Lambda are used to terminate resources they go idle for a period of time. When services\/images are recreated, they are automatically reconnected to persistent storage. \u00a0Going forward, PTP is working with this client to incorporate Amazon WorkSpaces and AWS Managed AD to further isolate data and create additional levels of control and security.<\/p><p>The result of this design and infrastructure-as-code implementation is a data management platform that will aid in the effort of research validation due to the limitation of variables and changes. The team also estimates between a 50-75% savings reduction driven through the automated deployment and tear-down of resources for use only when called upon verses building a traditional cloud computing environment. Lastly, the least-privilege access configurations enhance the protection of sensitive data which aligns with the consistent approach to the build of a Well Architected AWS environment.<\/p><p>\u00a0<\/p><h3>Purchase PTP's <a href=\"https:\/\/aws.amazon.com\/marketplace\/pp\/prodview-it7fjq6rqix74?sr=0-13&ref_=beagle&applicationId=AWSMPContessa\">CloudOps Offer<\/a> on AWS Marketplace!<\/h3><p>\u00a0<\/p><h3>Learn More about PTP's CloudOps <a href=\"https:\/\/ptp.cloud\/cloud-ops\/\">HERE<\/a><\/h3>","_et_gb_content_width":"","content-type":"","_monsterinsights_skip_tracking":false,"_monsterinsights_sitenote_active":false,"_monsterinsights_sitenote_note":"","_monsterinsights_sitenote_category":0,"_jetpack_memberships_contains_paid_content":false,"footnotes":""},"categories":[14],"tags":[76],"table_tags":[],"class_list":["post-15329","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-case-studies-archive","tag-aws"],"yoast_head":"<!-- This site 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