Revision History

Date Change
2024/01/23 Update the example in "5.2.3.3. MPI job"
2023/10/18 Update the example in "7.1.3. GROMACS"
2023/08/18 Update the example in "7.1.3. GROMACS"
2023/07/10 Update the example in "7.1.4. LAMMPS"
2023/04/14 Update "7.1.5. NAMD" to be suitable for NAMD 3.0b2
2023/04/06 Add an explanation of apptainer in "7.6.11. Singularity"
2023/03/15 Add C++ example of "7.4.8. clang"
2022/12/27 Update the examples of "7.4.6. DeePMD-kit"
2022/12/22 Update "6. ISV application"
2022/12/16 Add "7.4.6.1.2. DeePMD-kit + LAMMPS 2 nodes"
2022/12/13 Add "7.4.6. DeePMD-kit"
2022/12/07 Remove description of load balancer of "2.2. Login"
2022/09/09 Update the example script of "7.1.4. LAMMPS"
2022/08/23 Update the example script of "7.1.7. QUANTUM ESPRESSO"
2022/05/31 Add alphafold/2.2.0 in "7.6.12. Alphafold"
2022/04/12 Update the example script of "7.1.5. NAMD"
2022/04/05 miscellaneous updates for version up
2022/01/26 Removed infromation about non-commercial license from "7.6.12. Alphafold"
2022/01/25 Added supplemental explanation to "5.2. Job submission"
2021/12/13 Add version 2.1.1 into "7.6.12. Alphafold"
2021/11/12 Add "7.1.7. QUANTUM ESPRESSO"
2021/11/04 Update "7.6.12 Alphafold" to be able to use a specific version
2021/09/20 Update "2.5. How to check TSUBAME points"
2021/08/19 Add how to update the repository in "7.6.12. Alphafold"
2021/08/18 Update user restrictions for "5.4.3. Interactive queue"
2021/08/01 Add "7.6.12. Alphafold"
2021/04/06 Various updates for maintenance in Apr 2021 (5.4.3. Interactive queue, etc.)
2021/01/20 Add a note for one container job in "5.2.3.5. Container job"
2020/11/17 Add singularity into the list in "7. Freeware", update example ussages in "7.6.11. Singularity"
2020/11/17 Add MobaXterm usage in "7.6.1. turbovnc" and add an exmple use of VirtualGL
2020/11/06 Add an explanation of Rq and Rr state in "5.2.5. Job status"
2020/10/09 Update the example of fakeroot in "7.6.11. Singularity"
2020/08/05 Add an info about omitting the key pair in "2.2. Login"
2020/06/01 Add an example use of paraview with multiple GPUs in "7.5.2. ParaView"
2020/05/25 Update an example use of cp2k in "7.1.6. CP2K"
2020/05/18 Update an example use of lammps in "7.1.4. LAMMPS"
2020/04/30 Update "5.4.1 X forwarding"
2020/04/22 Add t3-user-info compute ars in "5.3. Reserve compute nodes"
2020/04/22 Replace openmpi/2.1.2-opa10.9-t3 with openmpi/3.1.4-opa10.10-t3 in "4.6.5. GPUDirect RDMA"
2020/04/09 Merge https://www.t3.gsic.titech.ac.jp/node/129 into "5.2.4.1. Trial run"
2020/04/07 Add a notice of the size of array job in "5.2.8. Array Job"
2020/04/07 Update memory limitation in "5.1.1.1. Available resource type"
2020/02/28 Add "4.4. PGI compiler"
2020/02/05 Add a notice of shebang in "5.2.2. Creating job script"
2020/01/17 Add how to view own processes when ssh'ed to compute node in "5.5. SSH login to the compute node"
2019/12/16 Add an explanation of Foundation and ESI in "7.2.1. OpenFOAM"
2019/12/06 Update "5.4.3. Interactive queue"
2019/12/03 Add "7.6.1.1. turbovnc + VirtualGL"
2019/11/29 Add "7.4.7. clang"
2019/11/29 Add "7.6.1. turbovnc"
2019/11/12 Add "5.4.3. Interactive queue"
2019/10/21 Update some examples for fakeroot option in "7.6.10. Singularity"
2019/10/04 Add some examples for fakeroot option in "7.6.10. Singularity"
2019/09/27 Update a link in "5.3. Reserve compute nodes"
2019/08/02 Update the configuration of "5. Job scheduler"
2019/07/31 Repalce f_node with s_core in the example of 5.2.3.1. serial job/GPU job
2019/07/30 Move numerical GPU libraries from PGI compiler manual to 7.3
2019/07/17 Delete "5.4. Checkpointing", add "7.5.9. DMTCP"
2019/07/10 Modified "5.3. Interactive job" to include how to terminate job
2019/06/12 Add "5.8.5 Connection to the network applications"
2019/06/10 Update "4.5.3. MPI Environment with CUDA" and "4.5.5. GPUDirect RDMA" for OPA10.9
2019/06/07 Add some explanations of the job script in "5.2.2 Creating job script"
2019/05/31 Add "2.2.1. Restrictions for heavy work in login nodes"
2019/05/30 Changed documenting system
Minor changes to expressions
2019/05/20 Modify "5.5 Reservation service"
2019/05/15 Update the link of "7.1.4 LAMMPS" and "7.1.5 NAMD"
2019/03/29 Add "5.8 Container job"
Modify "5.6.1 Local scratch area"
2019/01/25 Modify references due to chapter number change
2019/01/17 Modify Chapter name, order, category
2019/01/16 Modify "4.2.2 Creating Job Script"
Modify "4.6.1 Home Directory"
2018/12/03 Add "3.5.1.GPU COMPUTE MODE"
Modify "4.6.4.Shared scratch area"
2018/10/26 Modify "4.1. Available resource type"
2018/09/19 Modify "5. ISV application" to fit the current environment
2018/09/06 Add "6.5.9 singularity"
2018/08/23 Modify "6.3 Caffe, Chainer and Tensorflow"
2018/07/27 Modify "5.8 Gaussian" and "5.9 GaussView"
2018/05/25 Add "2.5 How to check TSUBAME points"
Add note to "4.6.1 Home Directory", "4.6.2 High-speed storage area"
2018/05/09 Remove the list of available modules, add a link to the web page
2018/04/05 Add "2.4 Changing default login shell"
Add "3.5 GPU Environment"
Add note job priority to "4.2.2 Creating job script"
2018/01/23 Add "4.5 Reservation service"
2018/01/12 Add note to "4.2 Job submission"
Add note to "4.3.1 x-forwarding"
Add "4.4 Signal Notification/Checkpinting"
Add note to "4.5 Storage system"
2017/10/26 Removed "5.12.4 User authentication"
2017/09/25 Add "4.3.1 x-forwarding"
2017/09/14 Add note CIFS volume display to "2.4 Storage service(CIFS)"
2017/09/11 Add login node memory limit to "2.2 Login"
Add note CIFS volume display to "2.4 Storage service(CIFS)"
Add usage method to "4.4.4 Shared scratch area"
2017/09/06 Second
2017/08/23 First