Emboss Backtranseq

secondsPaperCodeProduction Ready

Back-translation of a protein sequence

Readiness

Readiness: Production Ready
Smoke: passed
Artifacts: passed
Production: ready
Storage: <5
Strategy: staged user-space EMBOSS 6.6.0.0 binaries with LD_LIBRARY_PATH and EMBOSS data/acd roots
Next: Production Ready for protein FASTA back-translation with Ehum/Eyeast_high codon usage tables. Optional hardening: expose additional EMBOSS codon usage files in the GUI.

EMBOSS Backtranseq staged from Ubuntu 24.04 Noble apt packages emboss/emboss-data/emboss-lib/libhpdf in user space; version verified as EMBOSS 6.6.0.0. Binary path under extracted package prefix. Slurm smoke script was staged but sbatch rejected #SBATCH output/error paths containing space in seagate_nik. Package payload ~65 MB; symlink-unfriendly external drive required copied SONAME files. No system sudo install used. 2026-07-05 production-path evidence: direct backend Slurm job 425 ran staged EMBOSS 6.6.0.0 user-space backtranseq with LD_LIBRARY_PATH set to opt/emboss/usr/lib/emboss/lib and opt/emboss/usr/lib/x86_64-linux-gnu. Protein toy input produced backtranseq.fasta with one record and 87 bases; artifacts include protein.fa, backtranseq.fasta, embossversion.txt, backtranseq.stdout, backtranseq.stderr, results.csv, summary.json, and Slurm logs. 2026-07-07 19:33 +08:00 production validation: real EMBOSS Backtranseq runner adapter wired and deployed to Ubuntu backend. Runner API remote job 5c3c71aabc7b / Slurm job 507 completed using staged user-space EMBOSS 6.6.0.0 under /media/nik/seagate_nik/bio_server/tools/emboss-backtranseq/opt/emboss. Validation used Ehum codon usage file, produced protein.fa, backtranseq.fasta, embossversion.txt, backtranseq.stdout, backtranseq.stderr, results.csv, summary.json, job.log, slurm.out, and slurm.err. Runtime 0.038s; 26 amino acids yielded 78 DNA bases in one FASTA record.