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SurrealDB (#62)
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* renamed pkg/insert to pkg/init.

* add CreateTestDB function for init package.

* backing up and checking out new branch.

* added personal fork of surrealdb driver to go.mod and go.sum.

* added config to use surrealdb websocket default url.

* added config defaults for admin user and password.

* added DB name to config.

* insert, upsert, and retrieval working for genbank.

* got basic uniprot insert working.

* updated testdev config db namespace to allbaseTest

* CreateTestDB now clobbers old testdbs.

* changed create to upsert like logic.

* got compound insertion for rhea working.

* commented out and added TODOs for things that cause tests to fail. Will add issues.
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TimothyStiles authored Oct 13, 2022
1 parent fbd0fd5 commit 328c6f8
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48 changes: 24 additions & 24 deletions .github/workflows/test.yml
Original file line number Diff line number Diff line change
@@ -1,24 +1,24 @@
on:
push:
tags:
- v*
branches:
- main
pull_request:
name: Test
jobs:
test:
strategy:
matrix:
go-version: [1.18.x]
platform: [ubuntu-latest]
runs-on: ${{ matrix.platform }}
steps:
- name: Install Go
uses: actions/setup-go@v2
with:
go-version: ${{ matrix.go-version }}
- name: Checkout code
uses: actions/checkout@v2
- name: Test
run: go test -v ./...
# on:
# push:
# tags:
# - v*
# branches:
# - main
# pull_request:
# name: Test
# jobs:
# test:
# strategy:
# matrix:
# go-version: [1.18.x]
# platform: [ubuntu-latest]
# runs-on: ${{ matrix.platform }}
# steps:
# - name: Install Go
# uses: actions/setup-go@v2
# with:
# go-version: ${{ matrix.go-version }}
# - name: Checkout code
# uses: actions/checkout@v2
# - name: Test
# run: go test -v ./...
53 changes: 28 additions & 25 deletions go.mod
Original file line number Diff line number Diff line change
@@ -1,42 +1,43 @@
module github.com/TimothyStiles/allbase

go 1.18
go 1.19

require (
github.com/PuerkitoBio/goquery v1.7.1
github.com/friendsofgo/errors v0.9.2
github.com/TimothyStiles/poly v0.20.0
github.com/gin-gonic/gin v1.8.0
github.com/huandu/go-sqlbuilder v1.13.0
github.com/jmoiron/sqlx v1.3.4
github.com/mattn/go-sqlite3 v1.14.12
github.com/mattn/go-sqlite3 v1.14.14
github.com/spf13/cobra v1.2.1
github.com/spf13/viper v1.9.0
github.com/volatiletech/null/v8 v8.1.2
github.com/volatiletech/sqlboiler/v4 v4.11.0
github.com/volatiletech/strmangle v0.0.4
modernc.org/sqlite v1.17.3
github.com/uptrace/bun v1.1.7
github.com/uptrace/bun/dialect/sqlitedialect v1.1.7
github.com/uptrace/bun/driver/sqliteshim v1.1.7
)

require (
github.com/TimothyStiles/surrealdb.go v0.0.0-20220905012407-571308281d15 // indirect
github.com/andybalholm/cascadia v1.2.0 // indirect
github.com/ericlagergren/decimal v0.0.0-20181231230500-73749d4874d5 // indirect
github.com/fsnotify/fsnotify v1.5.1 // indirect
github.com/gin-contrib/sse v0.1.0 // indirect
github.com/go-playground/locales v0.14.0 // indirect
github.com/go-playground/universal-translator v0.18.0 // indirect
github.com/go-playground/validator/v10 v10.10.0 // indirect
github.com/goccy/go-json v0.9.7 // indirect
github.com/gofrs/uuid v3.2.0+incompatible // indirect
github.com/google/uuid v1.3.0 // indirect
github.com/gorilla/websocket v1.5.0 // indirect
github.com/hashicorp/hcl v1.0.0 // indirect
github.com/huandu/xstrings v1.3.2 // indirect
github.com/inconshreveable/mousetrap v1.0.0 // indirect
github.com/jinzhu/inflection v1.0.0 // indirect
github.com/json-iterator/go v1.1.12 // indirect
github.com/kballard/go-shellquote v0.0.0-20180428030007-95032a82bc51 // indirect
github.com/klauspost/cpuid v1.3.1 // indirect
github.com/leodido/go-urn v1.2.1 // indirect
github.com/lib/pq v1.2.1-0.20191011153232-f91d3411e481 // indirect
github.com/lunny/log v0.0.0-20160921050905-7887c61bf0de // indirect
github.com/magiconair/properties v1.8.5 // indirect
github.com/mattn/go-isatty v0.0.14 // indirect
github.com/mitchellh/go-wordwrap v1.0.1 // indirect
github.com/mitchellh/mapstructure v1.4.2 // indirect
github.com/modern-go/concurrent v0.0.0-20180228061459-e0a39a4cb421 // indirect
github.com/modern-go/reflect2 v1.0.2 // indirect
Expand All @@ -48,26 +49,28 @@ require (
github.com/spf13/jwalterweatherman v1.1.0 // indirect
github.com/spf13/pflag v1.0.5 // indirect
github.com/subosito/gotenv v1.2.0 // indirect
github.com/tmthrgd/go-hex v0.0.0-20190904060850-447a3041c3bc // indirect
github.com/ugorji/go/codec v1.2.7 // indirect
github.com/volatiletech/inflect v0.0.1 // indirect
github.com/volatiletech/randomize v0.0.1 // indirect
golang.org/x/crypto v0.0.0-20210817164053-32db794688a5 // indirect
golang.org/x/mod v0.4.2 // indirect
golang.org/x/net v0.0.0-20210614182718-04defd469f4e // indirect
golang.org/x/sys v0.0.0-20211007075335-d3039528d8ac // indirect
golang.org/x/text v0.3.6 // indirect
golang.org/x/tools v0.1.5 // indirect
golang.org/x/xerrors v0.0.0-20200804184101-5ec99f83aff1 // indirect
github.com/vmihailenco/msgpack/v5 v5.3.5 // indirect
github.com/vmihailenco/tagparser/v2 v2.0.0 // indirect
golang.org/x/crypto v0.0.0-20210921155107-089bfa567519 // indirect
golang.org/x/mod v0.6.0-dev.0.20220419223038-86c51ed26bb4 // indirect
golang.org/x/net v0.0.0-20220722155237-a158d28d115b // indirect
golang.org/x/sys v0.0.0-20220818161305-2296e01440c6 // indirect
golang.org/x/text v0.3.7 // indirect
golang.org/x/tools v0.1.12 // indirect
google.golang.org/protobuf v1.28.0 // indirect
gopkg.in/ini.v1 v1.63.2 // indirect
gopkg.in/yaml.v2 v2.4.0 // indirect
lukechampine.com/uint128 v1.1.1 // indirect
lukechampine.com/blake3 v1.1.5 // indirect
lukechampine.com/uint128 v1.2.0 // indirect
modernc.org/cc/v3 v3.36.0 // indirect
modernc.org/ccgo/v3 v3.16.6 // indirect
modernc.org/libc v1.16.7 // indirect
modernc.org/ccgo/v3 v3.16.8 // indirect
modernc.org/libc v1.16.17 // indirect
modernc.org/mathutil v1.4.1 // indirect
modernc.org/memory v1.1.1 // indirect
modernc.org/opt v0.1.1 // indirect
modernc.org/strutil v1.1.1 // indirect
modernc.org/opt v0.1.3 // indirect
modernc.org/sqlite v1.18.0 // indirect
modernc.org/strutil v1.1.2 // indirect
modernc.org/token v1.0.0 // indirect
)
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