Merge branch 'opensciencegrid:master' into master

.github/scripts/check_facility_has_institution_id/main.py

@@ -0,0 +1,64 @@
+# Run through all the FACILITY.yaml files and check that they have an institution_id field.
+
+import yaml
+import sys
+import glob
+import requests
+
+export_mapping = False
+
+# Get the list of valid institution ids
+response = requests.get("https://topology-institutions.osg-htc.org/api/institution_ids")
+topology_institutions = response.json()
+topology_institutions_by_id = {x['id']: x for x in topology_institutions}
+topology_institution_ids = {x['id'] for x in topology_institutions}
+
+def check_facility_institution_id(yaml_string: str):
+
+    facility = yaml.load(yaml_string, Loader=yaml.Loader)
+    if 'InstitutionID' not in facility:
+        raise Exception("FACILITY.yaml does not have an InstitutionID field")
+
+    if facility['InstitutionID'] not in topology_institution_ids and facility['InstitutionID'] is not None:
+        raise Exception(f"Invalid InstitutionID: {facility['InstitutionID']}")
+
+def provide_human_check_interface(facility_files: list):
+
+    facility_institution_mapping = {}
+    for file in facility_files:
+        with open(file, 'r') as f:
+            facility_name = file.split('/')[-2]
+            facility = yaml.load(f, Loader=yaml.Loader)
+            facility_institution_mapping[facility_name] = topology_institutions_by_id.get(facility['InstitutionID'], {}).get('name', None)
+
+    if export_mapping:
+        with open("facility_institution_mapping.yaml", 'w') as f:
+            yaml.dump(facility_institution_mapping, f)
+
+    else:
+        print(facility_institution_mapping)
+
+def main():
+
+    facility_files = glob.glob("../../../topology/**/FACILITY.yaml")
+
+    # Check the files
+    errors = []
+    for file in facility_files:
+        with open(file, 'r') as f:
+            try:
+                check_facility_institution_id(f)
+            except Exception as e:
+                errors.append((file.split("/")[-2], e))
+
+    # Print the errors and exit if needed
+    if errors:
+        for error in errors:
+            print(f"Error in {error[0]}: \n\t {error[1]}")
+        sys.exit(1)
+
+    provide_human_check_interface(facility_files)
+
+
+if __name__ == "__main__":
+    main()

.github/scripts/check_facility_has_institution_id/requirements.txt

@@ -0,0 +1,2 @@
+PyYAML==6.0.1
+requests==2.32.0

.github/scripts/check_project_fos_precision/requirements.txt

@@ -1,4 +1,4 @@
-certifi==2024.2.2
+certifi==2024.7.4
 charset-normalizer==3.3.2
 idna==3.7
 numpy==1.26.4
@@ -9,4 +9,4 @@ PyYAML==6.0.1
 requests==2.32.0
 six==1.16.0
 tzdata==2024.1
-urllib3==2.2.1
+urllib3==2.2.2

.github/workflows/check_facility_institution_id.yml

@@ -0,0 +1,20 @@
+name: Check Project FOS Precision
+on:
+  pull_request:
+    branches:
+      - main
+
+jobs:
+  check:
+    name: Check
+    runs-on: ubuntu-latest
+    if: startsWith(github.repository, 'opensciencegrid/')
+    steps:
+      - uses: actions/checkout@v3
+      - name: Set up Python
+        uses: actions/setup-python@v4
+        with:
+          python-version: 3.9.15
+          cache: 'pip' # caching pip dependencies
+      - run: pip install -r ./.github/scripts/check_facility_has_institution_id/requirements.txt
+      - run: python ./.github/scripts/check_facility_has_institution_id/main.py

.github/workflows/check_project_fos_precision.yml

@@ -2,7 +2,7 @@ name: Check Project FOS Precision
 on:
   pull_request:
     branches:
-      - main
+      - master
   schedule:
     - cron: '0 0 * * *'
 
@@ -19,4 +19,4 @@ jobs:
           python-version: 3.9.15
           cache: 'pip' # caching pip dependencies
       - run: pip install -r ./.github/scripts/check_project_fos_precision/requirements.txt
-      - run: python ./.github/scripts/check_project_fos_precision/main.py
+      - run: python ./.github/scripts/check_project_fos_precision/main.py

projects/CSU_Vogeler.yaml

@@ -0,0 +1,7 @@
+Department: Natural Resource Ecology Lab
+Description: Distributed geospatial data access and processing
+FieldOfScience: Ecological and Environmental Sciences
+FieldOfScienceID: '03.0101'
+InstitutionID: https://osg-htc.org/iid/2aj5pa9etoc7
+Organization: Colorado State University
+PIName: Jody Vogeler

projects/Caltech_2024_Reitze.yaml

@@ -0,0 +1,14 @@
+Department: The Division of Physics, Mathematics and Astronomy
+Description: The mission of the U.S. National Science Foundation Laser Interferometer
+  Gravitational-wave Observatory is to open the field of gravitational-wave astrophysics
+  through the direct detection of gravitational waves. LIGO is a national facility
+  for gravitational-wave research, providing opportunities for the broader scientific
+  community to participate in detector development, observations and data analysis.
+  LIGO detectors are available for use by members of the LIGO Scientific Collaboration
+  (LSC), comprising researchers in partner institutions around the world.
+FieldOfScience: Physics and astronomy
+FieldOfScienceID: '40.1101'
+InstitutionID: https://osg-htc.org/iid/m9rrh8ld1wyh
+Organization: California Institute of Technology
+PIName: David Reitze
+

projects/Cincinnati_Combs.yaml

@@ -0,0 +1,7 @@
+Department: Advanced Research Computing
+Description: Facilitating research computing efforts campus-wide
+FieldOfScience: Research Computing
+FieldOfScienceID: '11.0101'
+InstitutionID: https://osg-htc.org/iid/52f5piuly2gg
+Organization: University of Cincinnati
+PIName: Jane Combs

projects/Doane_Meysenburg.yaml

@@ -0,0 +1,13 @@
+Department: Information Science & Technology
+Description: This fall, I'm teaching a seminar for undergraduate students participating
+  in the "Developing Computational Efficacy and Skill Within an Inclusive Community
+  of Practice in the Natural Sciences" NSF grant, award number 2142238. In the grant,
+  we teach natural science students coding skills through Python image processing.
+  A central part of the seminar is to teach the students how to improve the performance
+  of their Python code. As a capstone to that portion of the class, students will
+  use OSG Services.
+FieldOfScience: Computer and Information Services
+FieldOfScienceID: '11.0101'
+InstitutionID: https://osg-htc.org/iid/f9c86mft1gzz
+Organization: Doane University
+PIName: Mark Meysenburg

projects/EHT_2023_Chan.yaml

@@ -0,0 +1,15 @@
+Department: Astronomy
+Description: >-
+    The EHT project combines data from several very-long-baseline
+    interferometry (VLBI) stations around Earth, which form a combined array
+    with an angular resolution sufficient to observe objects the size of
+    a supermassive black hole's event horizon. The project's observational
+    targets include the two black holes with the largest angular diameter as
+    observed from Earth: the black hole at the center of the supergiant
+    elliptical galaxy Messier 87, and Sagittarius A*, at the center of the
+    Milky Way.
+FieldOfScience: Astronomy
+FieldOfScienceID: '40.02'
+InstitutionID: https://osg-htc.org/iid/7rjyoz6kb8vq
+Organization: University of Arizona
+PIName: Chi-Kwan Chan

projects/EWMS_Riedel_Startup.yaml

@@ -1,10 +1,7 @@
-Department: Physics
-Description: To develop an Observation Management System Framework which will help alleviating multiple types of astrophysical data and respective workflow management. The Event Workflow Management System (EWMS)is a workload manager designed for processing events (simulated readouts from a particle physics detector, recorded data points, images, etc.) with complex workflows.
-FieldOfScience: Astrophysics
-Organization: University of Wisconsin-Madison
+Department: Wisconsin IceCube Particle Astrophyics Center
+Description: WIPAC is focused on neutrino astrophysics, operating the IceCube Neutrino Observatory and other projects around the world. 
+FieldOfScience: Computer and Information Science and Engineering
+FieldOfScienceID: '14.0903'
+InstitutionID: https://osg-htc.org/iid/fq8thqsj99zh
+Organization: University of Wisconsin-Madison 
 PIName: Benedikt Riedel
-Sponsor:
-  CampusGrid:
-    Name: PATh Facility
-InstitutionID: 'https://osg-htc.org/iid/fq8thqsj99zh'
-FieldOfScienceID: '40.0202'

projects/FIU_Bobadilla.yaml

@@ -0,0 +1,9 @@
+Department: Computing and Information Sciences
+Description: We are creating a large repository for simulation data, and we want to
+  provide our colleagues with options to run model calculations whose outcomes would
+  be stored in our repository.
+FieldOfScience: Computer and Information Science and Engineering
+FieldOfScienceID: '11.0101'
+InstitutionID: https://osg-htc.org/iid/gyqnlof5dslq
+Organization: Florida International University
+PIName: Leonardo Bobadilla

projects/GATech_Cadonati.yaml

@@ -0,0 +1,8 @@
+Department: Physics
+Description: Gravitational Wave Astrophysics, working on running unmodelled reconstruction
+  of signals and tests of general relativity.
+FieldOfScience: Astrophysics
+FieldOfScienceID: '40.0202'
+InstitutionID: https://osg-htc.org/iid/uvf22j6xjbtv
+Organization: Georgia Institute of Technology
+PIName: Laura Cadonati

projects/Hamilton_Chen.yaml

@@ -0,0 +1,8 @@
+Department: Computer Science
+Description: Research focuses on protein structure prediction and termination with
+  deep learning.
+FieldOfScience: Biological and Biomedical Sciences
+FieldOfScienceID: '26.9999'
+InstitutionID: https://osg-htc.org/iid/0rovxfragej9
+Organization: Hamilton College
+PIName: Xiao Chen

projects/Harrisburg_Syal.yaml

@@ -0,0 +1,8 @@
+Department: Computer Science
+Description: Working on small projects and showcasing OSpool and helping reachers
+  and faculty at HU.
+FieldOfScience: Computer Science
+FieldOfScienceID: '11.0101'
+InstitutionID: "https://osg-htc.org/iid/6l8t5d2hv9ay"
+Organization: Harrisburg University of Science and Technology
+PIName: Aditya Syal

projects/Hawaii_Sun.yaml

@@ -0,0 +1,10 @@
+Department: Institute of Astronomy
+Description: We study solar and stellar physical processes driven by magnetic field
+  dynamics with various numerical models and observational data analysis. We are also
+  involved in understanding the cyclic variation of the large-scale heliospheric magnetic
+  field.
+FieldOfScience: Astronomy and Astrophysics
+FieldOfScienceID: '40.0201'
+InstitutionID: https://osg-htc.org/iid/34mcskejwysy
+Organization: "University of Hawai\u02BBi at M\u0101noa"
+PIName: Xudong Sun

projects/Howard_Parry.yaml

@@ -0,0 +1,8 @@
+Department: Microbiology
+Description: The thrust of this project is to obtain a functional, structural and
+  mechanistic understanding of iron transport and systemwide homeostasis.
+FieldOfScience: Biophysics
+FieldOfScienceID: '26.0203'
+InstitutionID: https://osg-htc.org/iid/6flk2zw30csu
+Organization: Howard University
+PIName: Christian Parry

projects/IAState_Huang.yaml

@@ -0,0 +1,10 @@
+Department: Computer Sciences
+Description: 'Development of algorithms and software for bioinformatics.
+
+
+  https://faculty.sites.iastate.edu/xqhuang/'
+FieldOfScience: Computer Science
+FieldOfScienceID: '11.0701'
+InstitutionID: https://osg-htc.org/iid/wbwnw037cybm
+Organization: Iowa State University
+PIName: Xiaoqiu Huang

projects/Illinois_2024_Gammie.yaml

@@ -0,0 +1,7 @@
+Department: Physics
+Description: This project involves black holes, star and planet formation, and accretion physics. It includes computer simulation of astrophysical plasmas, particularly studies of hot plasmas accreting onto black holes
+FieldOfScience: Astrophysics
+FieldOfScienceID: '40.0202'
+InstitutionID: https://osg-htc.org/iid/10izzs5e7v1r
+Organization: University of Illinois Urbana-Champaign 
+PIName: Charles Gammie

projects/Illinois_Goyal.yaml

@@ -0,0 +1,8 @@
+Department: Computer Science
+Description: Diverse set of projects focusing on vision models/LLMs primarily falling
+  under the umbrella terms of "machine unlearning" and "human-AI alignment"
+FieldOfScience: Computer Science
+FieldOfScienceID: '11.0701'
+InstitutionID: https://osg-htc.org/iid/10izzs5e7v1r
+Organization: University of Illinois Urbana-Champaign
+PIName: Agam Goyal

projects/Illinois_Park.yaml

@@ -0,0 +1,12 @@
+Department: Statistics
+Description: 'My research broadly focuses on (a) causal inference under interference
+  and non-i.i.d. settings, (b) causal inference under unmeasured confounding, and
+  (c) optimal treatment regimes and policy learning. A common theme in my research
+  is to use non/semiparametric theory and optimization methods to develop efficient
+  and robust estimators of causal quantities in (a)-(c).
+  Website: https://www.chanpark.net/'
+FieldOfScience: Statistics
+FieldOfScienceID: '27.0503'
+InstitutionID: https://osg-htc.org/iid/10izzs5e7v1r
+Organization: University of Illinois Urbana-Champaign
+PIName: Chan Park

projects/Internet2_Brunson.yaml

@@ -0,0 +1,11 @@
+Department: Research Engagement
+Description: Research Engagement at Internet2 works to enhance global research computing
+  and data capability (RCD), capacity, and resources to better support and advance
+  research activity. We do this by providing consulting and training, facilitating
+  a professional community to develop tools and best practices, and supporting RCD
+  professionals as research partners. https://internet2.edu/community/research-engagement/
+FieldOfScience: Multidisciplinary
+FieldOfScienceID: 30.9999f
+InstitutionID: https://osg-htc.org/iid/rdbgla0ef33b
+Organization: Internet2
+PIName: Dana Brunson

projects/JHUAPL_Clement.yaml

@@ -0,0 +1,12 @@
+Department: Physics & Astronomy
+Description: The formation path way for the compact habitable zone planets system
+  TOI-700 composed of 4 planets is still a mystery. We use N-body simulations with
+  Mercury hybrid integrator to explore how this system was formed. Specifically, we
+  explore the possibility that the TOI-700 system started as a chain of planets in
+  mean-motion-resonance, and was then destabilized after the gas disk dissipated.
+FieldOfScience: Astronomy
+FieldOfScienceID: '40.0203'
+InstitutionID: "https://osg-htc.org/iid/bifky2z4c98h"
+Organization: Johns Hopkins University Applied Physics Laboratory
+PIName: Matthew Clement
+

projects/JacksonState_Talchabhadel.yaml

@@ -0,0 +1,12 @@
+Department: Civil and Environmental Engineering
+Description: research focuses on the interconnected impacts of climate change, flooding,
+  and heatwaves. We employ both physically-based and data-driven models to analyze
+  these phenomena. Our physically-based approach utilizes advanced climate and hydrological
+  simulations to project future scenarios, while our data-driven methodology leverages
+  machine learning and statistical techniques to identify patterns in large-scale
+  climate datasets.
+FieldOfScience: Civil Engineering
+FieldOfScienceID: '14.0801'
+InstitutionID: "https://osg-htc.org/iid/q8m8imsihb9c"
+Organization: Jackson State University
+PIName: Rocky Talchabhadel

projects/LIGO_GstLAL.yaml

@@ -0,0 +1,7 @@
+Department: LIGO
+Description: LIGO collaboration members contributing to the GstLAL package
+FieldOfScience: Astronomy and Astrophysics
+FieldOfScienceID: '40.0202'
+InstitutionID: https://osg-htc.org/iid/f1tlj6c19ppg
+Organization: Pennsylvania State University
+PIName: Chad Hanna

projects/LSU_Chakraborty.yaml

@@ -0,0 +1,13 @@
+Department: Physics and Astronomy
+Description: 'Work in the interdisciplinary fields in theoretical condensed matter
+  physics, quantum information science and statistical physics. My research focuses
+  on non-equilibrium dynamics of quantum many-particle systems, especially open quantum
+  systems and disordered systems. My "Quantum Dynamics and Information" group at LSU
+  will focus on three integrated research areas: (1) entanglement dynamics in monitored
+  quantum circuits, (2) manipulation of quantum material by light and (3) dynamics
+  of disordered systems and thermalization.'
+FieldOfScience: Physics
+FieldOfScienceID: '40.0808'
+InstitutionID: https://osg-htc.org/iid/lk45ajqlj7f1
+Organization: Louisiana State University
+PIName: Ahana Chakraborty

projects/MSU_Jacobson.yaml

@@ -0,0 +1,15 @@
+Department: Earth & Environmental Sciences
+Description: >-
+  My students and I are planetary scientists who study the planets,
+  moons, asteroids, and comets of the Solar System as well as other
+  planetary systems with computational tools from the fields of
+  celestial mechanics, geophysics, and geochemistry.  Our science is
+  driven by big questions: where did our world come from? What other
+  kinds of worlds are out there? And, how unique is our planets
+  history? (www.planetarymakerspace.org)
+FieldOfScience: Earth Sciences
+FieldOfScienceID: 40.0601b
+InstitutionID: https://osg-htc.org/iid/wala2w0ka0gb
+Organization: Michigan State University
+PIName: Seth Jacobson
+

projects/Michigan_2023_Riles.yaml

@@ -0,0 +1,7 @@
+Department: Physics
+Description: Research on gravitational waves and elementary particle physics.
+FieldOfScience: Astrophysics
+FieldOfScienceID: '40.0202'
+InstitutionID: https://osg-htc.org/iid/4ocf9kvq30fn
+Organization: University of Michigan–Ann Arbor
+PIName: J. Keith Riles