This is an old revision of the document!
Roughly speaking, three types of data will be kept, (1) public biological sequence and related data, (2) MiSeq data and (3) Analized data.
Highest priority: Usage for MACH project by the project members.
User | Family name | First name | Secondary groups | Note |
bioadmin | | | | to install bioinformatic tools without using root by using su/sudo |
joaquin | Rilling | Joaquin | fuse, machanal |
so | Fujiyoshi | So | fuse, machanal |
mickey | Kawai | Mikihiko | fuse, machanal |
fumito | Maruyama | Fumito | machanal | |
satoshi | Nagai | Satoshi | machanal | |
kyoko | Yarimizu | Kyoko | machanal | |
shoko | Ueki | Shoko | machanal | |
Date created | Group name | Purpose | Note |
20191001? | fuse | To mount basemount for getting raw gigabase-order raw sequence files of Illumina MiSeq from Illumina's BaseSpace | probably set by default setting of os |
20191001? | machanal | To share analyzed data among members of project MACH (e.g. at /data/mach/) |
not yet | machdb | | |
not yet | machweb | | |
not yet | machmodel | | |
Group | Assigned user |
machanal | joaquin |
machanal | so |
machanal | mickey |
machanal | fumito |
machanal | satoshi |
machanal | kyoko |
machanal | shoko |
| |
fuse | joaquin |
fuse | so |
fuse | mickey |
Path | Permission | Purpose | Size |
/data/ | 775 (root-research) | | 20TB |
/data/<project>/ | 2770 (<project>-research) | To keep data shared among users of the project | |
/data/<project>/<user>/ | 2750 | To keep data analyzed by the user of the project | |
List of projects
Project | Group | User | Last name | First name |
mach | machanal | joaquin | Joaqui | Rilling |
mach | machanal | so | So | Fujiyoshi |
mach | machanal | mickey | Mikihiko | Kawai |
ao | name_ao | kei | Kei | Yoshimura |
ao | name_ao | fumiaki | Fumiaki | Morimoto |
ao | name_ao | xiaojun | Xiaojun | name |
For directories of tools and public databases of biological data
Path | Permission | Purpose | Size |
/bio | 775 (bioadmin-bioadmin) | | 25TB |
/bio/bin | | | |
/bio/package | | | |
/bio/package/<tool>/<version> | | | |
/bio/db | | | |
Group | Assigned user |
machanal | joaquin |
machanal | so |
machanal | mickey |
machanal | fumito |
machanal | satoshi |
machanal | kyoko |
machanal | shoko |
fuse | joaquin |
fuse | so |
fuse | mickey |
Path | Permission | Purpose |
/data/ | 775 (root-research) | |
/data/<project>/ | 2770 (<project>-research) | To keep data shared among users of the project |
/data/<project>/<user>/ | 2750 | To keep data analyzed by the user of the project |
* /data can be other path, for example, /home/proj
* <user> belongs to a group, of which name for the <project> may be simply the same as <project>, but can be different.
List of projects
Project | Group | User |
mach | machanal | joaquin |
mach | machanal | so |
mach | machanal | mickey |
For directories of tools and public databases of biological data
Path | Permission | Purpose | Size |
/bio | 775 (bioadmin-bioadmin) | | 25TB |
/bio/bin | | | |
/bio/db | | | |
/bio/package | | | |
/bio/package/<tool>/<version> | | | |
Priority | Group name of priviledge | Purpose | Note | |
High | mach | Usage for MACH project by the project members. | Distribute evenly among users (e.g. for biological analysis and for simulation) (by ticket, nice value etc. on SLURM) | |
machcolab | Coollaborative studies by MACH members | | | |
ufro-internal | Need to submit user form (e.g. Name, affiliation, purpose of usage, desired account if any) | | |
Low | external | Need to submit user form (e.g. Name, affiliation, purpose of usage, desired account if any) | | |
Queue name | Duration of one job | Memory per job | | |
small | 6hr | | medium | 72hr |
Group of priviledge | Number of simultaneous jobs | | | |
default | e.g. 30? | | | |
Submit an application form if one wants to request large resources, say, storage, memory per queue, number of similutaneously running queues/cpu.
Roughly speaking, three types of data will be kept, public biological sequence and related data, MiSeq data and Analized data.
Highest priority: Usage for MACH project by the project members.
User | Family name | First name | Secondary groups | Note |
bioadmin | | | | to install bioinformatic tools without using root by using su/sudo |
joaquin | Rilling | Joaquin | fuse, machanal |
so | Fujiyoshi | So | fuse, machanal |
mickey | Kawai | Mikihiko | fuse, machanal |
fumito | Maruyama | Fumito | machanal | |
satoshi | Nagai | Satoshi | machanal | |
kyoko | Yarimizu | Kyoko | machanal | |
shoko | Ueki | Shoko | machanal | |
Date created | Group name | Purpose | Note |
20191001? | fuse | To mount basemount for getting raw gigabase-order raw sequence files of Illumina MiSeq from Illumina's BaseSpace | probably set by default setting of os |
20191001? | machanal | To share analyzed data among members of project MACH (e.g. at /data/mach/) |
not yet | machdb | | |
not yet | machweb | | |
not yet | machmodel | | |
Group | Assigned user |
machanal | joaquin |
machanal | so |
machanal | mickey |
machanal | fumito |
machanal | satoshi |
machanal | kyoko |
machanal | shoko |
| |
fuse | joaquin |
fuse | so |
fuse | mickey |
Path | Permission | Purpose | Size |
/data/ | 775 (root-research) | | 20TB |
/data/<project>/ | 2770 (<project>-research) | To keep data shared among users of the project | |
/data/<project>/<user>/ | 2750 | To keep data analyzed by the user of the project | |
List of projects
Project | Group | User | Last name | First name |
mach | machanal | joaquin | Joaqui | Rilling |
mach | machanal | so | So | Fujiyoshi |
mach | machanal | mickey | Mikihiko | Kawai |
ao | name_ao | kei | Kei | Yoshimura |
ao | name_ao | fumiaki | Fumiaki | Morimoto |
ao | name_ao | xiaojun | Xiaojun | name |
For directories of tools and public databases of biological data
Path | Permission | Purpose | Size |
/bio | 775 (bioadmin-bioadmin) | | 25TB |
/bio/bin | | | |
/bio/package | | | |
/bio/package/<tool>/<version> | | | |
/bio/db | | | |
Group | Assigned user |
machanal | joaquin |
machanal | so |
machanal | mickey |
machanal | fumito |
machanal | satoshi |
machanal | kyoko |
machanal | shoko |
fuse | joaquin |
fuse | so |
fuse | mickey |
Path | Permission | Purpose |
/data/ | 775 (root-research) | |
/data/<project>/ | 2770 (<project>-research) | To keep data shared among users of the project |
/data/<project>/<user>/ | 2750 | To keep data analyzed by the user of the project |
* /data can be other path, for example, /home/proj * <user> belongs to a group, of which name for the <project> may be simply the same as <project>, but can be different.
List of projects
Project | Group | User |
mach | machanal | joaquin |
mach | machanal | so |
mach | machanal | mickey |
For directories of tools and public databases of biological data
Path | Permission | Purpose | Size |
/bio | 775 (bioadmin-bioadmin) | | 25TB |
/bio/bin | | | |
/bio/db | | | |
/bio/package | | | |
/bio/package/<tool>/<version> | | | |
Priority | Group name of priviledge | Purpose | Note | |
High | mach | Usage for MACH project by the project members. | Distribute evenly among users (e.g. for biological analysis and for simulation) (by ticket, nice value etc. on SLURM) | |
machcolab | Coollaborative studies by MACH members | | | |
ufro-internal | Need to submit user form (e.g. Name, affiliation, purpose of usage, desired account if any) | | |
Low | external | Need to submit user form (e.g. Name, affiliation, purpose of usage, desired account if any) | | |
| Disk quote per user |
default | 500GB |
Queue name | Duration of one job | Memory per job | | |
small | 6hr | | medium | 72hr |
Group of priviledge | Number of simultaneous jobs | | | |
default | e.g. 30? | | | |
Submit an application form if one wants to request large resources, say, storage, memory per queue, number of similutaneously running queues/cpu.
MACH Meeting about soroban