This readme.txt file was generated in Dec 2021 by William J. Matthaeus to accompany Data for: Freeze tolerance influenced forest cover and hydrology during the Pennsylvanian GENERAL INFORMATION 1. Title of Dataset: Data for: Freeze tolerance influenced forest cover and hydrology during the Pennsylvanian 2. Author Information A. Principal Investigator Contact Information Name: Matthaeus, William J. Institution: Baylor Univeristy Address: Waco, TX 76706 Email: will_matthaeus@baylor.edu B. Associate or Co-investigator Contact Information Name: Macarewich, Sophia I. Institution: University of Michigan-Ann Arbor Address: Ann Arbor, MI 48109 Email: sophmaca@umich.edu C. Associate or Co-investigator Contact Information Name: Richey, Jon D. Institution: Baylor University Address: Waco, TX 76706 Email: Jon_Richey@baylor.edu D. Associate or Co-investigator Contact Information Name: Wilson, Jonathan P. Institution: Haverford College Address: Haverford College, Haverford, PA 19041 Email: jwilson@haverford.edu E. Associate or Co-investigator Contact Information Name: McElwin, Jennifer C. Institution: Trinity College Dublin Address: Dublin 2, Ireland D02 PN40 Email: jennifer.mcelwain@gmail.com F. Associate or Co-investigator Contact Information Name: Montañez, Isabel P. Institution: University of California, Davis Address: Davis, CA 95616 Email: ipmontanez@ucdavis.edu G. Associate or Co-investigator Contact Information Name: DiMichele, William A. Institution: Smithsonian Institution Address: Washington, DC 20560 Email: DIMICHEL@si.edu H. Associate or Co-investigator Contact Information Name: Hren, Michael T. Institution: University of Connecticut Address: Storrs, CT 06269 Email: poulsen@umich.edu I. Associate or Co-investigator Contact Information Name: Poulsen, Christopher J. Institution: University of Michigan-Ann Arbor Address: Ann Arbor, MI 48109 Email: poulsen@umich.edu J. Associate or Co-investigator Contact Information Name: White, Joseph D. Institution: Baylor University Address: Waco, TX 76707 Email: Joseph_D_White@baylor.edu 3. Date of data collection (2019-04-01 to 2019-12-31) 4. Information about funding sources that supported the collection of the data: NSF Division of Earth Sciences, Awards: EAR-1338247, EAR-1338281, EAR-1338200, EAR-1338256, EAR-1338256 European Research Council, Awards: ERC-2011-StG, 279962-OXYEVOL SHARING/ACCESS INFORMATION 1. Licenses/restrictions placed on the data: This work is licensed under a CC0 1.0 Universal (CC0 1.0) Public Domain Dedication license. 2. Links to publications that cite or use the data: 10.1073/pnas.2025227118 3. Links/relationships to ancillary data sets: Scripts for porting GENESIS V3 data to Paleo-BGC input can be found at github.com/wjmatthaeus/bgc_utils. Paleo-BGC and its associated parameterizations can be found at github.com/josephdwhite/paleo-bgc. DATA & FILE OVERVIEW 1. File List: GENESIS.182.28.zip (1.10 GB) - GENESIS V3 global climate model individual history variable output files representing Pennsylvanian glacial maximum with atmospheric CO2 at 182 ppm and O2 at 28%. Net-CDF format. GENESIS.546.28.zip (1.04 GB) - GENESIS V3 global climate model individual history variable output files representing Pennsylvanian glacial minimum with atmospheric CO2 at 546 ppm and O2 at 28%. Net-CDF format. grid_GLAC_...019.tar.gz (135.63 GB) - Paleo-BGC ecosystem model output, based on GCM data for glacial minimum (CO2 at 546 ppm and O2 at 28%). Nested *nix directories containing all individual simulationsand the commands and parameter files required to run them. grid_IGLAC_...818.tar.gz (154.64 GB) - Paleo-BGC ecosystem model output based on GCM data for glacial minimum (CO2 at 546 ppm and O2 at 28%). Nested *nix directories containing all individual simulations, and the commands and parameter files required to run them. 2. Relationship between files, if important: Temperatures (Min/Max/Ave) and precipitation GCM data ("GENESIS.*") are used to create the meteorological inputs for Paleo-BGC simulations ("grid*") 3. Additional related data collected that was not included in the current data package: N/A 4. Are there multiple versions of the dataset? Yes. Simulations with vegetation selectively turned off are not included due to size limits. (see below) METHODOLOGICAL INFORMATION 1. Description of methods used for collection/generation of data: Paleo-BGC is described in the publication: White, Joseph D., Isabel P. Montañez, Jonathan P. Wilson, Jennifer C. McElwain, William A DiMichele, Michael T. Hren, Sophia Macarewich, Jon D. Richey, and Matthaeus, William J. “A Process-Based Ecosystem Model (Paleo-BGC) to Simulate the Dynamic Response of Late Carboniferous Plants to Elevated O2 And Aridification.” American Journal of Science In Press (August 2020). Experimental design for this dataset is described in the publication: Matthaeus, William J., Sophia I. Macarewich, Jon D. Richey, Jonathan P. Wilson, Jennifer C. McElwain, Isabel P. Montañez, William A. DiMichele, Michael T. Hren, Christopher J. Poulsen, and Joseph D. White. “Freeze Tolerance Influenced Forest Cover and Hydrology during the Pennsylvanian.” Proceedings of the National Academy of Sciences 118, no. 42 (October 19, 2021): e2025227118. https://doi.org/10.1073/pnas.2025227118. GENESIS V3 files are named for their history variable, CO2 and O2 levels, simulation year, and resolution (i.e. PRECIP_546.28_41.2x2.nc). Paleo-BGC output is named for the glacial scenario (GLAC/IGLAC), CO2 and O2 levels, longitude and latitude, plant type, and fossil parameter values. Filenames were used to parse Paleo-BGC output into summary data structures in R for analysis. Please note: Paleo-BGC output is in a file structure that associates each model run with its parameterization an initialization files. This output is best processed using unix based command line utilities provided on github above. Scripts for porting GENESIS V3 data to Paleo-BGC input and running can be found at github.com/wjmatthaeus/bgc_utils Paleo-BGC and its associated parameter files can be found at github.com/josephdwhite/paleo-bgc To reproduce simulations with vegetation selectively turned off, set the initial leaf C to zero at all locations where you want no vegetation. 2. Methods for processing the data: Scripts for porting GENESIS V3 data to Paleo-BGC input and running them serially can be found at github.com/wjmatthaeus/bgc_utils Paleo-BGC output variables needed for analysis were summarized (average and standard deviation) using awk in a shell script, example can be found at github.com/wjmatthaeus/bgc_utils 3. Instrument- or software-specific information needed to interpret the data: Scripts were built and tested in CentOS and R (2018-19), should run on updated versions, albeit with troubleshooting possible. 4. Standards and calibration information, if appropriate: N/A 5. Environmental/experimental conditions: N/A 6. Describe any quality-assurance procedures performed on the data: Processed meterological data were checked against original outputs by comparing statistics (mean, min, max, s.d.). Output file lengths, and sizes were checked using shell commands to ensure succesful simulations at each grid point. All data were checked visually using R. 7. People involved with sample collection, processing, analysis and/or submission: William J. Matthaeus, Sophia I. Macarewich. DATA-SPECIFIC INFORMATION FOR GENESIS output files: Each .nc file has 1 history variable indicated by the filename, in addition to index variables. These files are self-describing. Variable information, including dimensionality may be accessed using NCL (ncl.ucar.edu), GEOCAT (geocat.ucar.edu/), or a command line utility like ncdump (unidata.ucar.edu/software/netcdf/workshops/2011/utilities/index.html) DATA-SPECIFIC INFORMATION FOR Paleo-BGC outputs files ("grid_*"): NOTE: These files are not optimized for GUI based viewing. Each top directory contains thousands of sub-directories. They are more easily accessed directly using command line, and understanding of the directory/file structure. File structures contain directory uniquely named to describe each individual simulation For example, "/546_28_101_-41_cordaites_MEDCN_MEDg" contains the Paleo-BGC simulation using meterological data from GENESIS with 546 ppm CO2, 28% O2, at 101 deg. longitude/ -41 deg. latitude, and using ecophysiological data for cordaites with median CN ratios and stomatal conductance. Each unique simulation directory contains a standard input and output directory structure including: the initialization file, met file, epc file, and command used to run that simulation. The list of output variables is found in the ini file (same for all), output variables are described in the Paleo-BGC source file "bgc_struct.h"