Building a consistent and reproducible database for adsorption evaluation in Covalent-Organic Frameworks


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{
  "created": "2021-06-20T10:25:16.658001+00:00", 
  "metadata": {
    "publication_date": "Jun 30, 2021, 23:16:51", 
    "mcid": "2021.100", 
    "_files": [
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        "description": "CIF files with DFT-optimized coordinates/unit cell and atomic DDEC charges.", 
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      {
        "key": "export_discovery_cof_20Jun21.aiida", 
        "description": "AiiDA provenance graph exported using aiida-core 1.6.1", 
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    ], 
    "id": "894", 
    "title": "Building a consistent and reproducible database for adsorption evaluation in Covalent-Organic Frameworks", 
    "is_last": true, 
    "description": "We present a workflow that traces the path from the bulk structure of a crystalline material to assessing its performance in carbon capture from coal\u2019s postcombustion flue gases. This workflow is applied to a database of 324 covalent\u2212organic frameworks (COFs) reported in the literature, to characterize their CO2 adsorption properties using the following steps: \n(1) optimization of the crystal structure (atomic positions and unit cell) using density functional theory, \n(2) fitting atomic point charges based on the electron density, \n(3) characterizing the pore geometry of the structures before and after optimization, \n(4) computing carbon dioxide and nitrogen isotherms using grand canonical Monte Carlo simulations with an empirical interaction potential, and finally, \n(5) assessing the CO2 parasitic energy via process modeling. \n\nThe full workflow has been encoded in the Automated Interactive Infrastructure and Database for Computational Science (AiiDA). Both the workflow and the automatically generated provenance graph of our calculations are made available on the Materials Cloud, allowing peers to inspect every input parameter and result along the workflow, download structures and files at intermediate stages, and start their research right from where this work has left off. In particular, our set of CURATED (Clean, Uniform, and Refined with Automatic Tracking from Experimental Database) COFs, having optimized geometry and high-quality DFT-derived point charges, are available for further investigations of gas adsorption properties. We plan to update the database as new COFs are being reported.\n\n*** UPDATE December 2019 ***\n - Database extended to  include 417 COFs (from papers published until September 1st 2019)\n- Migration to AiiDA-v1.0.0\n- Using the publicly available plugin aiida-lsmo\n\n*** UPDATE February 2020 ***\n - Database extended to  include 505 COFs (from papers published until February 1st 2020)\n - Including AiiDA Groups for quick interactive visualization\n\n*** UPDATE June 2020 ***\n - Database extended to include 574 COFs (from papers published until June 1st 2020)\n\n*** UPDATE September 2020 ***\n - Include other applications than CCS, considering the same set of 574 COFs\n\n*** UPDATE October 2020 ***\n - Database extended to include 626 COFs (from papers published until October 1st 2020)\n\n*** UPDATE February 2021 ***\n - Database extended to include 632 COFs (from papers published until February 1st 2021). We added a total of 61 new structures but we discarded 55: see CURATED-COFs GitHub for more details.\n\n*** UPDATE June 2021 ***\n - Database extended to include 648 valid COFs (from papers published until June 1st 2021) plus 80 discarded: see CURATED-COFs GitHub for more details.", 
    "keywords": [
      "Reproducibility", 
      "MARVEL/DD4", 
      "AiiDA", 
      "covalent-organic-framework", 
      "Workflows", 
      "MARVEL/OSP", 
      "ERC"
    ], 
    "references": [
      {
        "comment": "Paper in which the Carbon Capture and Sequestration (CCS) workflow is presented and the method is described", 
        "citation": "D.Ongari, A. V. Yakutovich, L. Talirz, B. Smit, ACS Central Science 5, 1663-1675 (2019)", 
        "doi": "10.1021/acscentsci.9b00619", 
        "url": "", 
        "type": "Journal reference"
      }, 
      {
        "comment": "Paper in which the multiple-applications screening concept is presented", 
        "doi": "10.1021/acscentsci.0c00988", 
        "type": "Journal reference", 
        "citation": "D.Ongari, L. Talirz, B. Smit, ACS Central Science (2020)"
      }, 
      {
        "comment": "AiiDA plugin package containing AiiDA workflows used in this work.", 
        "citation": "Daniele Ongari, Aliaksandr Yakutovich, & Leopold Talirz. (2020, September 08). lsmo-epfl/aiida-lsmo v1.0.0", 
        "doi": "10.5281/zenodo.4019767", 
        "url": "", 
        "type": "Software"
      }, 
      {
        "comment": "Application for data visualization in DISCOVER section.", 
        "citation": "Leopold Talirz, & Daniele Ongari. (2020, October). lsmo-epfl/discover-curated-cofs v1.0.0", 
        "doi": "10.5281/zenodo.4153555", 
        "url": "", 
        "type": "Software"
      }
    ], 
    "license": "Creative Commons Attribution 4.0 International", 
    "version": 9, 
    "contributors": [
      {
        "familyname": "Ongari", 
        "affiliations": [
          "Institut des Sciences et Ing\u00e9nierie Chimiques, \u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne (EPFL), CH-1951 Sion, Valais, Switzerland"
        ], 
        "givennames": "Daniele", 
        "email": "daniele.ongari@epfl.ch"
      }, 
      {
        "familyname": "Yakutovich", 
        "affiliations": [
          "Institut des Sciences et Ing\u00e9nierie Chimiques, \u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne (EPFL), CH-1951 Sion, Valais, Switzerland"
        ], 
        "givennames": "Aliaksandr V."
      }, 
      {
        "familyname": "Talirz", 
        "affiliations": [
          "Institut des Sciences et Ing\u00e9nierie Chimiques, \u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne (EPFL), CH-1951 Sion, Valais, Switzerland"
        ], 
        "givennames": "Leopold"
      }, 
      {
        "familyname": "Smit", 
        "affiliations": [
          "Institut des Sciences et Ing\u00e9nierie Chimiques, \u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne (EPFL), CH-1951 Sion, Valais, Switzerland"
        ], 
        "givennames": "Berend"
      }
    ], 
    "owner": 69, 
    "edited_by": 29, 
    "conceptrecid": "161", 
    "status": "published", 
    "license_addendum": "", 
    "_oai": {
      "id": "oai:materialscloud.org:894"
    }, 
    "doi": "10.24435/materialscloud:z6-jn"
  }, 
  "updated": "2021-06-30T21:16:51.801020+00:00", 
  "id": "894", 
  "revision": 5
}