diff options
| author | Frederick Muriuki Muriithi | 2025-02-03 09:07:07 -0600 |
|---|---|---|
| committer | Frederick Muriuki Muriithi | 2025-02-11 12:29:55 -0600 |
| commit | 5f3fdf7700042025f8688e1b316d2c083b6c5c96 (patch) | |
| tree | eb9300af21fa08c5cd8363a5db7978b73a84c8ac | |
| parent | 08254a505bf9c458d68eac7cb873fe5b0cfc79ec (diff) | |
| download | gn-machines-5f3fdf7700042025f8688e1b316d2c083b6c5c96.tar.gz | |
Add `gn-tmpdir` configuration setting to <genenetwork-configuration>
Add the `gn-tmpdir` configuration setting to help with providing a way to configure a separate temporary directory for the genenetwork services that is separate from the container's `/tmp` directory. This might also help in resolving some issue with `/etc/resolv.conf` not being found in `/tmp` for some reason.
| -rw-r--r-- | genenetwork/services/genenetwork.scm | 16 |
1 files changed, 9 insertions, 7 deletions
diff --git a/genenetwork/services/genenetwork.scm b/genenetwork/services/genenetwork.scm index d01bec3..3f9a823 100644 --- a/genenetwork/services/genenetwork.scm +++ b/genenetwork/services/genenetwork.scm @@ -121,6 +121,8 @@ (default "/export/data/gn-docs")) (gn-virtuoso-ttl-directory genenetwork-configuration-gn-virtuoso-ttl-directory (default "/export/data/virtuoso/ttl")) + (gn-tmpdir genenetwork-configuration-gn-tmpdir + (default "/opt/gn/tmp")) (log-level genenetwork-configuration-log-level (default 'warning) (sanitize sanitize-log-level))) @@ -317,7 +319,7 @@ G-expressions or numbers." described by @var{config}, a @code{<genenetwork-configuration>} object." (match-record config <genenetwork-configuration> - (genenetwork2 genenetwork3 gn-auth server-name gn-auth-server-name gn2-port gn3-port gn-auth-port sql-uri auth-db xapian-db genotype-files sparql-endpoint gn-sourcecode-directory gn3-data-directory gn2-secrets gn3-secrets gn-auth-secrets llm-db-path log-level) + (genenetwork2 genenetwork3 gn-auth server-name gn-auth-server-name gn2-port gn3-port gn-auth-port sql-uri auth-db xapian-db genotype-files sparql-endpoint gn-sourcecode-directory gn3-data-directory gn2-secrets gn3-secrets gn-auth-secrets llm-db-path gn-tmpdir log-level) ;; If we mapped only the mysqld.sock socket file, it would break ;; when the external mysqld server is restarted. (let* ((database-mapping (file-system-mapping @@ -383,7 +385,7 @@ object." (value gn2-profile)) (environment-variable (name "TMPDIR") - (value "/tmp")) + (value gn-tmpdir)) (environment-variable (name "GN2_SETTINGS") (value gn2-conf)) @@ -401,8 +403,8 @@ object." (source gn-sourcecode-directory) (target source)) (file-system-mapping ; GN2 and GN3 need to share TMPDIR - (source "/tmp") - (target "/tmp") + (source gn-tmpdir) + (target source) (writable? #t)) (file-system-mapping (source gn2-conf) @@ -437,7 +439,7 @@ object." (value gn3-conf)) (environment-variable (name "TMPDIR") - (value "/tmp")) + (value gn-tmpdir)) (environment-variable (name "GN3_SECRETS") (value gn3-secrets)) @@ -464,8 +466,8 @@ object." (source gn3-data-directory) (target source)) ; Rqtl usese this (file-system-mapping ; GN2 and GN3 need to share TMPDIR - (source "/tmp") - (target "/tmp") + (source gn-tmpdir) + (target source) (writable? #t)) (file-system-mapping (source xapian-db) |