3D-PDR is a three-dimensional photodissociation region code written in Fortran. It uses the Sundials package (written in C) to solve the set of ordinary differential equations and it is the successor of UCL_PDR, a one-dimensional PDR code written at UCL. Using the HEALpix ray-tracing scheme, 3D-PDR solves a three-dimensional escape probability routine and evaluates the attenuation of the far-ultraviolet radiation in the PDR and the propagation of FIR/submm emission lines out of the PDR.
The code is parallelized (OpenMP) and can be applied to 1D and 3D problems. The GitHub package includes: the 3D-PDR code, three different chemical networks (33, 58, and 128 species) and molecular data, the Sundials solver, and a set of various 1D uniform density clouds and a uniform density spherical distribution to test the 3D version of the code. To `make' 3D-PDR, you will first need to install the Sundials package and link 3D-PDR with the ODE solver. Please see the manual for instructions on how to do this step-by-step.
(Update: 05/05/2019) The file [3dpdr_cr.tgz] that can be found in the main tarball, contains a totally new version of 3D-PDR treating cosmic-ray sources. This version was developed by Brandt Gaches [email: bgaches .at. astro.umass.edu] and is presented in Gaches et al. (2019, submitted). The tarball contains a short additional manual. The code successfully runs using the ifort compiler (for gfortran compilers further tests are need to be done). Please contact Brandt Gaches for any question regarding this version.
3D-PDR works with the gfortran version 4.8.4 and the ifort version 14.0.4. Later compiler versions may require adjustments in the code.
You are free to download and use the code for your work provided that you will cite the paper by T.G. et al., 2012, MNRAS, 427, 2100
Authors and Contributors
Main author: Thomas G. Bisbas (@tbisbas).
Contributors: Serena Viti, Michael J. Barlow, Jeremy Yates, Tom Bell, Brandt Gaches
The development of the code has been funded by STFC grants ST/H001794/1 and ST/J001511/1.
Published papers using 3D-PDR
A number of papers have been using 3D-PDR for studying Photodissociation Regions in 1D and 3D:
- Gaches B.A.L., Offner S.S.R., Bisbas T.G. (2019a)
- Gaches B.A.L., Offner S.S.R., Bisbas T.G. (2019b)
- Bisbas T.G., Schruba A., van Dishoeck E.F. (2019)
- Banerji M., Jones G.C., Wang J., et al. (2018)
- Papadopoulos P.P, Bisbas T.G., Zhang Z-Y (2018)
- Bisbas T.G., Tan J.C., Csengeri T., et al., (2018)
- Bisbas T.G., Tanaka, K.E.I., Tan, J.C. et al., (2017)
- Bisbas T.G., van Dishoeck E.W., Papadopoulos P.P. et al., (2017)
- Bothwell M.S., Aguirre J.E., Aravena M., et al., (2017)
- Accurso G., Saintoge A., Bisbas T.G. and Viti S., (2016)
- Facchini S., Clarke C. and Bisbas T.G. (2016)
- Bisbas T.G., Haworth T.J., Barlow M.J., et al., (2015)
- Bisbas T.G., Papadopoulos P.P. and Viti S., (2015)
- Gaches B.A.L., Offner S.S.R., Rosolowsky E.W. and Bisbas T.G., (2015)
- Offner S.S.R., Bisbas T.G., Bell T.A. and Viti S. (2014)
- Bisbas T.G., Bell T.A., Viti S., et al., (2014)
- Offner S.S.R., Bisbas T.G., Viti S. and Bell T.A. (2013)
Support or Contact
Included in the repository is a PDF manual. Any further questions can be directed to tbisbas at gmail.com