diff --git a/.github/workflows/build.yaml b/.github/workflows/build.yaml new file mode 100644 index 0000000..7e56383 --- /dev/null +++ b/.github/workflows/build.yaml @@ -0,0 +1,59 @@ +name: Build NPM package +on: + pull_request: + types: [opened, reopened, synchronize] + branches: + - 'main' + push: + branches: + - 'main' + +jobs: + init: + runs-on: ubuntu-latest + steps: + - uses: milaboratory/github-ci/actions/context/init@v4 + with: + version-canonize: false + branch-versioning: main + run: + needs: + - init + + uses: milaboratory/github-ci/.github/workflows/node-simple.yaml@v4-beta + with: + app-name: Blast PL package + app-name-slug: 'blast' + notify-telegram: true + + node-version: '20.x' + is-electron-application: 'false' + always-auth: 'true' + + build-script-name: 'build' + + test: false + test-script-name: 'test' + + publish-script-name: 'release' + + aws-login-enable: true + gcp-login-enable: true + + secrets: + env: | + { + "PL_REGISTRY_PLATFORMA_OPEN_UPLOAD_URL": ${{ toJSON(secrets.PL_REGISTRY_PLOPEN_UPLOAD_URL) }} + } + + AWS_ASSUME_ROLE: ${{ secrets.AWS_CI_IAM_MONOREPO_SIMPLE_ROLE }} + AWS_ASSUME_REGION: "eu-central-1" + + GCP_KMS_WORKLOAD_IDENTITY_PROVIDER: ${{ secrets.GCP_KMS_WORKLOAD_IDENTITY_PROVIDER }} + GCP_KMS_SERVICE_ACCOUNT: ${{ secrets.GCP_KMS_SERVICE_ACCOUNT }} + GCP_KMS_LOCATION: ${{ secrets.GCP_KMS_LOCATION }} + GCP_KMS_KEYRING: ${{ secrets.GCP_KMS_KEYRING }} + GCP_KMS_KEY_NAME: ${{ secrets.GCP_KMS_KEY_NAME }} + + TELEGRAM_NOTIFICATION_TARGET: ${{ secrets.TG_CHANNEL_MIBUILDS }} + TELEGRAM_API_TOKEN: ${{ secrets.TG_CI_BOT_TOKEN }} diff --git a/.gitignore b/.gitignore new file mode 100644 index 0000000..d8eb3e6 --- /dev/null +++ b/.gitignore @@ -0,0 +1,3 @@ +/dld/ +pkg-*.tgz +/node_modules/ diff --git a/README.md b/README.md new file mode 100644 index 0000000..6c187d3 --- /dev/null +++ b/README.md @@ -0,0 +1,24 @@ +# Blast software for Platforma Backend + +This package is the catalogue of all supported versions of blast software. + +Unlike most other software packages, it keeps entrypoint descriptors for all blast versions +published earlier. + +As we do not maintain/build the blast itself, the version of this package is not bound to any +specific version of blast, but newer blast version publications produce newer descriptors +(*.sw.json files) in this package. + +## How to release new version of blast + +1. Update `package.json`: + 1. Add new artifact for fresh version of blast. + 2. Add entrypoints for newly added version of blast. + 3. Update default version of blast commands if needed (entrypoints without version suffix). + 4. Change version of blast built by default in `pkg:build` and `publish:packages` scripts. +2. Check packaegs and descriptors are built normally + ```bash + npm run pkg:build + ``` +3. Commit all descriptors generated in `dist` directory. +4. Bump `` version part in `package.json`. diff --git a/dist/tengo/software/blast_formatter-2.16.0.sw.json b/dist/tengo/software/blast_formatter-2.16.0.sw.json index 777de0a..a4c7b9b 100644 --- a/dist/tengo/software/blast_formatter-2.16.0.sw.json +++ b/dist/tengo/software/blast_formatter-2.16.0.sw.json @@ -1 +1 @@ -{"name":"@platforma-open/blast:blast_formatter-2.16.0","binary":{"type":"binary","registry":"milaboratories","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blast_formatter"],"envVars":[]}} +{"name":"@platforma-open/blast:blast_formatter-2.16.0","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blast_formatter"],"envVars":[]}} diff --git a/dist/tengo/software/blast_formatter.sw.json b/dist/tengo/software/blast_formatter.sw.json new file mode 100644 index 0000000..63fcb07 --- /dev/null +++ b/dist/tengo/software/blast_formatter.sw.json @@ -0,0 +1 @@ +{"name":"@platforma-open/blast:blast_formatter","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blast_formatter"],"envVars":[]}} diff --git a/dist/tengo/software/blast_formatter_vdb-2.16.0.sw.json b/dist/tengo/software/blast_formatter_vdb-2.16.0.sw.json index 3d9d857..41577e5 100644 --- a/dist/tengo/software/blast_formatter_vdb-2.16.0.sw.json +++ b/dist/tengo/software/blast_formatter_vdb-2.16.0.sw.json @@ -1 +1 @@ -{"name":"@platforma-open/blast:blast_formatter_vdb-2.16.0","binary":{"type":"binary","registry":"milaboratories","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blast_formatter_vdb"],"envVars":[]}} +{"name":"@platforma-open/blast:blast_formatter_vdb-2.16.0","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blast_formatter_vdb"],"envVars":[]}} diff --git a/dist/tengo/software/blast_formatter_vdb.sw.json b/dist/tengo/software/blast_formatter_vdb.sw.json new file mode 100644 index 0000000..8ac75cd --- /dev/null +++ b/dist/tengo/software/blast_formatter_vdb.sw.json @@ -0,0 +1 @@ +{"name":"@platforma-open/blast:blast_formatter_vdb","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blast_formatter_vdb"],"envVars":[]}} diff --git a/dist/tengo/software/blast_vdb_cmd-2.16.0.sw.json b/dist/tengo/software/blast_vdb_cmd-2.16.0.sw.json index e334ceb..cee3447 100644 --- a/dist/tengo/software/blast_vdb_cmd-2.16.0.sw.json +++ b/dist/tengo/software/blast_vdb_cmd-2.16.0.sw.json @@ -1 +1 @@ -{"name":"@platforma-open/blast:blast_vdb_cmd-2.16.0","binary":{"type":"binary","registry":"milaboratories","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blast_vdb_cmd"],"envVars":[]}} +{"name":"@platforma-open/blast:blast_vdb_cmd-2.16.0","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blast_vdb_cmd"],"envVars":[]}} diff --git a/dist/tengo/software/blast_vdb_cmd.sw.json b/dist/tengo/software/blast_vdb_cmd.sw.json new file mode 100644 index 0000000..8f93a0f --- /dev/null +++ b/dist/tengo/software/blast_vdb_cmd.sw.json @@ -0,0 +1 @@ +{"name":"@platforma-open/blast:blast_vdb_cmd","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blast_vdb_cmd"],"envVars":[]}} diff --git a/dist/tengo/software/blastdb_aliastool-2.16.0.sw.json b/dist/tengo/software/blastdb_aliastool-2.16.0.sw.json index c6878bb..18c55e4 100644 --- a/dist/tengo/software/blastdb_aliastool-2.16.0.sw.json +++ b/dist/tengo/software/blastdb_aliastool-2.16.0.sw.json @@ -1 +1 @@ -{"name":"@platforma-open/blast:blastdb_aliastool-2.16.0","binary":{"type":"binary","registry":"milaboratories","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastdb_aliastool"],"envVars":[]}} +{"name":"@platforma-open/blast:blastdb_aliastool-2.16.0","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastdb_aliastool"],"envVars":[]}} diff --git a/dist/tengo/software/blastdb_aliastool.sw.json b/dist/tengo/software/blastdb_aliastool.sw.json new file mode 100644 index 0000000..cca529f --- /dev/null +++ b/dist/tengo/software/blastdb_aliastool.sw.json @@ -0,0 +1 @@ +{"name":"@platforma-open/blast:blastdb_aliastool","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastdb_aliastool"],"envVars":[]}} diff --git a/dist/tengo/software/blastdbcheck-2.16.0.sw.json b/dist/tengo/software/blastdbcheck-2.16.0.sw.json index 7eb23fb..d69d977 100644 --- a/dist/tengo/software/blastdbcheck-2.16.0.sw.json +++ b/dist/tengo/software/blastdbcheck-2.16.0.sw.json @@ -1 +1 @@ -{"name":"@platforma-open/blast:blastdbcheck-2.16.0","binary":{"type":"binary","registry":"milaboratories","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastdbcheck"],"envVars":[]}} +{"name":"@platforma-open/blast:blastdbcheck-2.16.0","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastdbcheck"],"envVars":[]}} diff --git a/dist/tengo/software/blastdbcheck.sw.json b/dist/tengo/software/blastdbcheck.sw.json new file mode 100644 index 0000000..ae0db86 --- /dev/null +++ b/dist/tengo/software/blastdbcheck.sw.json @@ -0,0 +1 @@ +{"name":"@platforma-open/blast:blastdbcheck","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastdbcheck"],"envVars":[]}} diff --git a/dist/tengo/software/blastdbcmd-2.16.0.sw.json b/dist/tengo/software/blastdbcmd-2.16.0.sw.json index 56221ea..b9a7afb 100644 --- a/dist/tengo/software/blastdbcmd-2.16.0.sw.json +++ b/dist/tengo/software/blastdbcmd-2.16.0.sw.json @@ -1 +1 @@ -{"name":"@platforma-open/blast:blastdbcmd-2.16.0","binary":{"type":"binary","registry":"milaboratories","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastdbcmd"],"envVars":[]}} +{"name":"@platforma-open/blast:blastdbcmd-2.16.0","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastdbcmd"],"envVars":[]}} diff --git a/dist/tengo/software/blastdbcmd.sw.json b/dist/tengo/software/blastdbcmd.sw.json new file mode 100644 index 0000000..3677c5d --- /dev/null +++ b/dist/tengo/software/blastdbcmd.sw.json @@ -0,0 +1 @@ +{"name":"@platforma-open/blast:blastdbcmd","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastdbcmd"],"envVars":[]}} diff --git a/dist/tengo/software/blastn-2.16.0.sw.json b/dist/tengo/software/blastn-2.16.0.sw.json index 58be230..8fb5ee7 100644 --- a/dist/tengo/software/blastn-2.16.0.sw.json +++ b/dist/tengo/software/blastn-2.16.0.sw.json @@ -1 +1 @@ -{"name":"@platforma-open/blast:blastn-2.16.0","binary":{"type":"binary","registry":"milaboratories","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastn"],"envVars":[]}} +{"name":"@platforma-open/blast:blastn-2.16.0","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastn"],"envVars":[]}} diff --git a/dist/tengo/software/blastn.sw.json b/dist/tengo/software/blastn.sw.json new file mode 100644 index 0000000..de8f23a --- /dev/null +++ b/dist/tengo/software/blastn.sw.json @@ -0,0 +1 @@ +{"name":"@platforma-open/blast:blastn","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastn"],"envVars":[]}} diff --git a/dist/tengo/software/blastn_vdb-2.16.0.sw.json b/dist/tengo/software/blastn_vdb-2.16.0.sw.json index 26bd382..c248538 100644 --- a/dist/tengo/software/blastn_vdb-2.16.0.sw.json +++ b/dist/tengo/software/blastn_vdb-2.16.0.sw.json @@ -1 +1 @@ -{"name":"@platforma-open/blast:blastn_vdb-2.16.0","binary":{"type":"binary","registry":"milaboratories","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastn_vdb"],"envVars":[]}} +{"name":"@platforma-open/blast:blastn_vdb-2.16.0","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastn_vdb"],"envVars":[]}} diff --git a/dist/tengo/software/blastn_vdb.sw.json b/dist/tengo/software/blastn_vdb.sw.json new file mode 100644 index 0000000..c1acbc9 --- /dev/null +++ b/dist/tengo/software/blastn_vdb.sw.json @@ -0,0 +1 @@ +{"name":"@platforma-open/blast:blastn_vdb","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastn_vdb"],"envVars":[]}} diff --git a/dist/tengo/software/blastp-2.16.0.sw.json b/dist/tengo/software/blastp-2.16.0.sw.json index 31f9b6b..3e3f0f7 100644 --- a/dist/tengo/software/blastp-2.16.0.sw.json +++ b/dist/tengo/software/blastp-2.16.0.sw.json @@ -1 +1 @@ -{"name":"@platforma-open/blast:blastp-2.16.0","binary":{"type":"binary","registry":"milaboratories","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastp"],"envVars":[]}} +{"name":"@platforma-open/blast:blastp-2.16.0","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastp"],"envVars":[]}} diff --git a/dist/tengo/software/blastp.sw.json b/dist/tengo/software/blastp.sw.json new file mode 100644 index 0000000..4dd89b7 --- /dev/null +++ b/dist/tengo/software/blastp.sw.json @@ -0,0 +1 @@ +{"name":"@platforma-open/blast:blastp","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastp"],"envVars":[]}} diff --git a/dist/tengo/software/blastx-2.16.0.sw.json b/dist/tengo/software/blastx-2.16.0.sw.json index cd2a39b..abcbf36 100644 --- a/dist/tengo/software/blastx-2.16.0.sw.json +++ b/dist/tengo/software/blastx-2.16.0.sw.json @@ -1 +1 @@ -{"name":"@platforma-open/blast:blastx-2.16.0","binary":{"type":"binary","registry":"milaboratories","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastx"],"envVars":[]}} +{"name":"@platforma-open/blast:blastx-2.16.0","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastx"],"envVars":[]}} diff --git a/dist/tengo/software/blastx.sw.json b/dist/tengo/software/blastx.sw.json new file mode 100644 index 0000000..a133be1 --- /dev/null +++ b/dist/tengo/software/blastx.sw.json @@ -0,0 +1 @@ +{"name":"@platforma-open/blast:blastx","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/blastx"],"envVars":[]}} diff --git a/dist/tengo/software/convert2blastmask-2.16.0.sw.json b/dist/tengo/software/convert2blastmask-2.16.0.sw.json index e53fed0..a166319 100644 --- a/dist/tengo/software/convert2blastmask-2.16.0.sw.json +++ b/dist/tengo/software/convert2blastmask-2.16.0.sw.json @@ -1 +1 @@ -{"name":"@platforma-open/blast:convert2blastmask-2.16.0","binary":{"type":"binary","registry":"milaboratories","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/convert2blastmask"],"envVars":[]}} +{"name":"@platforma-open/blast:convert2blastmask-2.16.0","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/convert2blastmask"],"envVars":[]}} diff --git a/dist/tengo/software/convert2blastmask.sw.json b/dist/tengo/software/convert2blastmask.sw.json new file mode 100644 index 0000000..b831bb0 --- /dev/null +++ b/dist/tengo/software/convert2blastmask.sw.json @@ -0,0 +1 @@ +{"name":"@platforma-open/blast:convert2blastmask","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/convert2blastmask"],"envVars":[]}} diff --git a/dist/tengo/software/deltablast-2.16.0.sw.json b/dist/tengo/software/deltablast-2.16.0.sw.json index c9838fc..4a8f4ef 100644 --- a/dist/tengo/software/deltablast-2.16.0.sw.json +++ b/dist/tengo/software/deltablast-2.16.0.sw.json @@ -1 +1 @@ -{"name":"@platforma-open/blast:deltablast-2.16.0","binary":{"type":"binary","registry":"milaboratories","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/deltablast"],"envVars":[]}} +{"name":"@platforma-open/blast:deltablast-2.16.0","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/deltablast"],"envVars":[]}} diff --git a/dist/tengo/software/deltablast.sw.json b/dist/tengo/software/deltablast.sw.json new file mode 100644 index 0000000..043083a --- /dev/null +++ b/dist/tengo/software/deltablast.sw.json @@ -0,0 +1 @@ +{"name":"@platforma-open/blast:deltablast","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/deltablast"],"envVars":[]}} diff --git a/dist/tengo/software/dustmasker-2.16.0.sw.json b/dist/tengo/software/dustmasker-2.16.0.sw.json index 48ff5a9..a5d2ac8 100644 --- a/dist/tengo/software/dustmasker-2.16.0.sw.json +++ b/dist/tengo/software/dustmasker-2.16.0.sw.json @@ -1 +1 @@ -{"name":"@platforma-open/blast:dustmasker-2.16.0","binary":{"type":"binary","registry":"milaboratories","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/dustmasker"],"envVars":[]}} +{"name":"@platforma-open/blast:dustmasker-2.16.0","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/dustmasker"],"envVars":[]}} diff --git a/dist/tengo/software/dustmasker.sw.json b/dist/tengo/software/dustmasker.sw.json new file mode 100644 index 0000000..4894a50 --- /dev/null +++ b/dist/tengo/software/dustmasker.sw.json @@ -0,0 +1 @@ +{"name":"@platforma-open/blast:dustmasker","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/dustmasker"],"envVars":[]}} diff --git a/dist/tengo/software/makeblastdb-2.16.0.sw.json b/dist/tengo/software/makeblastdb-2.16.0.sw.json index e048290..fbaf82a 100644 --- a/dist/tengo/software/makeblastdb-2.16.0.sw.json +++ b/dist/tengo/software/makeblastdb-2.16.0.sw.json @@ -1 +1 @@ -{"name":"@platforma-open/blast:makeblastdb-2.16.0","binary":{"type":"binary","registry":"milaboratories","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/makeblastdb"],"envVars":[]}} +{"name":"@platforma-open/blast:makeblastdb-2.16.0","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/makeblastdb"],"envVars":[]}} diff --git a/dist/tengo/software/makeblastdb.sw.json b/dist/tengo/software/makeblastdb.sw.json new file mode 100644 index 0000000..45e5c2f --- /dev/null +++ b/dist/tengo/software/makeblastdb.sw.json @@ -0,0 +1 @@ +{"name":"@platforma-open/blast:makeblastdb","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/makeblastdb"],"envVars":[]}} diff --git a/dist/tengo/software/makembindex-2.16.0.sw.json b/dist/tengo/software/makembindex-2.16.0.sw.json index 78afbfb..85b9f2a 100644 --- a/dist/tengo/software/makembindex-2.16.0.sw.json +++ b/dist/tengo/software/makembindex-2.16.0.sw.json @@ -1 +1 @@ -{"name":"@platforma-open/blast:makembindex-2.16.0","binary":{"type":"binary","registry":"milaboratories","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/makembindex"],"envVars":[]}} +{"name":"@platforma-open/blast:makembindex-2.16.0","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/makembindex"],"envVars":[]}} diff --git a/dist/tengo/software/makembindex.sw.json b/dist/tengo/software/makembindex.sw.json new file mode 100644 index 0000000..7c9f2fe --- /dev/null +++ b/dist/tengo/software/makembindex.sw.json @@ -0,0 +1 @@ +{"name":"@platforma-open/blast:makembindex","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/makembindex"],"envVars":[]}} diff --git a/dist/tengo/software/makeprofiledb-2.16.0.sw.json b/dist/tengo/software/makeprofiledb-2.16.0.sw.json index 9e0f351..dafefd9 100644 --- a/dist/tengo/software/makeprofiledb-2.16.0.sw.json +++ b/dist/tengo/software/makeprofiledb-2.16.0.sw.json @@ -1 +1 @@ -{"name":"@platforma-open/blast:makeprofiledb-2.16.0","binary":{"type":"binary","registry":"milaboratories","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/makeprofiledb"],"envVars":[]}} +{"name":"@platforma-open/blast:makeprofiledb-2.16.0","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/makeprofiledb"],"envVars":[]}} diff --git a/dist/tengo/software/makeprofiledb.sw.json b/dist/tengo/software/makeprofiledb.sw.json new file mode 100644 index 0000000..663b4f0 --- /dev/null +++ b/dist/tengo/software/makeprofiledb.sw.json @@ -0,0 +1 @@ +{"name":"@platforma-open/blast:makeprofiledb","binary":{"type":"binary","registry":"platforma-open","package":"platforma-open/blast/2.16.0/2.16.0-{os}-{arch}.tgz","cmd":["{pkg}/makeprofiledb"],"envVars":[]}} diff --git 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"blast_formatter_vdb": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/blast_formatter_vdb"] } }, + "blast_vdb_cmd": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/blast_vdb_cmd"] } }, + "blastdb_aliastool": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/blastdb_aliastool"] } }, + "blastdbcheck": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/blastdbcheck"] } }, + "blastdbcmd": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/blastdbcmd"] } }, + "blastn": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/blastn"] } }, + "blastn_vdb": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/blastn_vdb"] } }, + "blastp": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/blastp"] } }, + "blastx": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/blastx"] } }, + "convert2blastmask": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/convert2blastmask"] } }, + "deltablast": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/deltablast"] } }, + "dustmasker": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/dustmasker"] } }, + "makeblastdb": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/makeblastdb"] } }, + "makembindex": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/makembindex"] } }, + "makeprofiledb": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/makeprofiledb"] } }, + "psiblast": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/psiblast"] } }, + "rpsblast": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/rpsblast"] } }, + "rpstblastn": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/rpstblastn"] } }, + "segmasker": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/segmasker"] } }, + "tblastn": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/tblastn"] } }, + "tblastn_vdb": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/tblastn_vdb"] } }, + "tblastx": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/tblastx"] } }, + "windowmasker": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/windowmasker"] } }, + "blast_formatter-2.16.0": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/blast_formatter"] } }, "blast_formatter_vdb-2.16.0": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/blast_formatter_vdb"] } }, "blast_vdb_cmd-2.16.0": { "binary": { "artifact": "2.16.0", "cmd": ["{pkg}/blast_vdb_cmd"] } }, @@ -57,6 +83,6 @@ }, "license": "UNLICENSED", "devDependencies": { - "@milaboratory/pl-package-builder": "^2.8.0" + "@platforma-sdk/package-builder": "^2.9.2" } } diff --git a/scripts/build.sh b/scripts/build.sh index a127158..3415b44 100755 --- a/scripts/build.sh +++ b/scripts/build.sh @@ -22,6 +22,10 @@ fi # version="${1}" +# Fast-track: make descriptors at the very beginning as packages download may take a while +pl-pkg build descriptors \ + --package-id="${version}" + ./2.x/pkg-download.sh "${version}" macosx x64 ./2.x/pkg-download.sh "${version}" macosx aarch64 ./2.x/pkg-download.sh "${version}" linux x64 @@ -31,6 +35,3 @@ version="${1}" pl-pkg build packages \ --package-id="${version}" \ --all-platforms - -pl-pkg build descriptors \ - --package-id="${version}" diff --git a/scripts/publish.sh b/scripts/publish.sh index d3f8c7d..8ecb62e 100755 --- a/scripts/publish.sh +++ b/scripts/publish.sh @@ -7,7 +7,7 @@ set -o nounset # Script state init # script_dir="$(cd "$(dirname "${0}")" && pwd)" -cd "${script_dir}" +cd "${script_dir}/.." if [ "$#" -ne 1 ]; then echo "" @@ -21,17 +21,45 @@ fi # Script parameters # version="${1}" +files_to_check=( + "dist/tengo/software/blast_formatter-${version}.sw.json" + "dist/tengo/software/blast_formatter_vdb-${version}.sw.json" + "dist/tengo/software/blast_vdb_cmd-${version}.sw.json" + "dist/tengo/software/blastdb_aliastool-${version}.sw.json" + "dist/tengo/software/blastdbcheck-${version}.sw.json" + "dist/tengo/software/blastdbcmd-${version}.sw.json" + "dist/tengo/software/blastn-${version}.sw.json" + "dist/tengo/software/blastn_vdb-${version}.sw.json" + "dist/tengo/software/blastp-${version}.sw.json" + "dist/tengo/software/blastx-${version}.sw.json" + "dist/tengo/software/convert2blastmask-${version}.sw.json" + "dist/tengo/software/deltablast-${version}.sw.json" + "dist/tengo/software/dustmasker-${version}.sw.json" + "dist/tengo/software/makeblastdb-${version}.sw.json" + "dist/tengo/software/makembindex-${version}.sw.json" + "dist/tengo/software/makeprofiledb-${version}.sw.json" + "dist/tengo/software/psiblast-${version}.sw.json" + "dist/tengo/software/rpsblast-${version}.sw.json" + "dist/tengo/software/rpstblastn-${version}.sw.json" + "dist/tengo/software/segmasker-${version}.sw.json" + "dist/tengo/software/tblastn-${version}.sw.json" + "dist/tengo/software/tblastn_vdb-${version}.sw.json" + "dist/tengo/software/tblastx-${version}.sw.json" + "dist/tengo/software/windowmasker-${version}.sw.json" +) -if ! [ -f "../dist/tengo/software/${version}.sw.json" ]; then - echo "" - echo "No software descriptor found at 'dist/tengo/software/${version}.sw.json'." - echo "" - echo "Looks like you're going to publish new version of amazon corretto java distribution." - echo "See README.md for the instructions on how to do this properly." - echo "" +for f in "${files_to_check[@]}"; do + if ! [ -f "${f}" ]; then + echo "" + echo "No software descriptor found at '${f}'." + echo "" + echo "Looks like you're going to publish new version of blast distribution." + echo "See README.md for the instructions on how to do this properly." + echo "" - exit 1 -fi + exit 1 + fi +done pl-pkg sign packages \ --package-id="${version}" \