From bb34b03400954b61743a90039d7c9521a3cf96e3 Mon Sep 17 00:00:00 2001 From: David Rauh Date: Thu, 2 Feb 2023 15:33:02 +0100 Subject: [PATCH] #10 refactor some minor issues --- cmd/mb3server/api/openapi.yaml | 1 - cmd/mb3server/src/routers.go | 2 +- go.mod | 21 +---- go.sum | 90 --------------------- pkg/database/mongodb.go | 80 +++++++++--------- pkg/massbank/parser.go | 8 +- scripts/config-openapi.yaml | 3 +- scripts/go-server-template/routers.mustache | 4 +- 8 files changed, 53 insertions(+), 156 deletions(-) diff --git a/cmd/mb3server/api/openapi.yaml b/cmd/mb3server/api/openapi.yaml index 7444fee..ad29090 100644 --- a/cmd/mb3server/api/openapi.yaml +++ b/cmd/mb3server/api/openapi.yaml @@ -1177,7 +1177,6 @@ components: enum: - MS_TYPE - ION_MODE - - CAPILLARY_VOLTAGE - COLLISION_ENERGY - COLLISION_GAS - DATE diff --git a/cmd/mb3server/src/routers.go b/cmd/mb3server/src/routers.go index 1356537..dfa5b19 100644 --- a/cmd/mb3server/src/routers.go +++ b/cmd/mb3server/src/routers.go @@ -184,7 +184,7 @@ func parseBoolParameter(param string) (bool, error) { return false, err } - return bool(val), nil + return val, nil } // parseInt64ArrayParameter parses a string parameter containing array of values to []int64. diff --git a/go.mod b/go.mod index 2777933..79bea66 100644 --- a/go.mod +++ b/go.mod @@ -6,37 +6,24 @@ require github.com/go-chi/chi/v5 v5.0.3 require ( github.com/go-chi/cors v1.2.0 - github.com/go-git/go-git/v5 v5.5.2 go.mongodb.org/mongo-driver v1.11.1 golang.org/x/net v0.2.0 ) require ( - github.com/Microsoft/go-winio v0.5.2 // indirect - github.com/ProtonMail/go-crypto v0.0.0-20221026131551-cf6655e29de4 // indirect - github.com/acomagu/bufpipe v1.0.3 // indirect - github.com/cloudflare/circl v1.1.0 // indirect - github.com/emirpasic/gods v1.18.1 // indirect - github.com/go-git/gcfg v1.5.0 // indirect - github.com/go-git/go-billy/v5 v5.4.0 // indirect github.com/golang/snappy v0.0.1 // indirect - github.com/imdario/mergo v0.3.13 // indirect - github.com/jbenet/go-context v0.0.0-20150711004518-d14ea06fba99 // indirect - github.com/kevinburke/ssh_config v1.2.0 // indirect + github.com/google/go-cmp v0.5.9 // indirect github.com/klauspost/compress v1.13.6 // indirect + github.com/kr/pretty v0.2.1 // indirect + github.com/kr/text v0.2.0 // indirect github.com/montanaflynn/stats v0.0.0-20171201202039-1bf9dbcd8cbe // indirect - github.com/pjbgf/sha1cd v0.2.3 // indirect github.com/pkg/errors v0.9.1 // indirect - github.com/sergi/go-diff v1.1.0 // indirect - github.com/skeema/knownhosts v1.1.0 // indirect - github.com/xanzy/ssh-agent v0.3.3 // indirect + github.com/stretchr/testify v1.7.0 // indirect github.com/xdg-go/pbkdf2 v1.0.0 // indirect github.com/xdg-go/scram v1.1.1 // indirect github.com/xdg-go/stringprep v1.0.3 // indirect github.com/youmark/pkcs8 v0.0.0-20181117223130-1be2e3e5546d // indirect golang.org/x/crypto v0.3.0 // indirect golang.org/x/sync v0.0.0-20220722155255-886fb9371eb4 // indirect - golang.org/x/sys v0.3.0 // indirect golang.org/x/text v0.4.0 // indirect - gopkg.in/warnings.v0 v0.1.2 // indirect ) diff --git a/go.sum b/go.sum index 8b1ee81..1e5855d 100644 --- a/go.sum +++ b/go.sum @@ -1,49 +1,16 @@ -github.com/Microsoft/go-winio v0.5.2 h1:a9IhgEQBCUEk6QCdml9CiJGhAws+YwffDHEMp1VMrpA= -github.com/Microsoft/go-winio v0.5.2/go.mod h1:WpS1mjBmmwHBEWmogvA2mj8546UReBk4v8QkMxJ6pZY= -github.com/ProtonMail/go-crypto v0.0.0-20221026131551-cf6655e29de4 h1:ra2OtmuW0AE5csawV4YXMNGNQQXvLRps3z2Z59OPO+I= -github.com/ProtonMail/go-crypto v0.0.0-20221026131551-cf6655e29de4/go.mod h1:UBYPn8k0D56RtnR8RFQMjmh4KrZzWJ5o7Z9SYjossQ8= -github.com/acomagu/bufpipe v1.0.3 h1:fxAGrHZTgQ9w5QqVItgzwj235/uYZYgbXitB+dLupOk= -github.com/acomagu/bufpipe v1.0.3/go.mod h1:mxdxdup/WdsKVreO5GpW4+M/1CE2sMG4jeGJ2sYmHc4= -github.com/anmitsu/go-shlex v0.0.0-20200514113438-38f4b401e2be h1:9AeTilPcZAjCFIImctFaOjnTIavg87rW78vTPkQqLI8= -github.com/anmitsu/go-shlex v0.0.0-20200514113438-38f4b401e2be/go.mod h1:ySMOLuWl6zY27l47sB3qLNK6tF2fkHG55UZxx8oIVo4= -github.com/armon/go-socks5 v0.0.0-20160902184237-e75332964ef5 h1:0CwZNZbxp69SHPdPJAN/hZIm0C4OItdklCFmMRWYpio= -github.com/armon/go-socks5 v0.0.0-20160902184237-e75332964ef5/go.mod h1:wHh0iHkYZB8zMSxRWpUBQtwG5a7fFgvEO+odwuTv2gs= -github.com/bwesterb/go-ristretto v1.2.0/go.mod h1:fUIoIZaG73pV5biE2Blr2xEzDoMj7NFEuV9ekS419A0= -github.com/cloudflare/circl v1.1.0 h1:bZgT/A+cikZnKIwn7xL2OBj012Bmvho/o6RpRvv3GKY= -github.com/cloudflare/circl v1.1.0/go.mod h1:prBCrKB9DV4poKZY1l9zBXg2QJY7mvgRvtMxxK7fi4I= github.com/creack/pty v1.1.9/go.mod h1:oKZEueFk5CKHvIhNR5MUki03XCEU+Q6VDXinZuGJ33E= github.com/davecgh/go-spew v1.1.0/go.mod h1:J7Y8YcW2NihsgmVo/mv3lAwl/skON4iLHjSsI+c5H38= github.com/davecgh/go-spew v1.1.1 h1:vj9j/u1bqnvCEfJOwUhtlOARqs3+rkHYY13jYWTU97c= github.com/davecgh/go-spew v1.1.1/go.mod h1:J7Y8YcW2NihsgmVo/mv3lAwl/skON4iLHjSsI+c5H38= -github.com/emirpasic/gods v1.18.1 h1:FXtiHYKDGKCW2KzwZKx0iC0PQmdlorYgdFG9jPXJ1Bc= -github.com/emirpasic/gods v1.18.1/go.mod h1:8tpGGwCnJ5H4r6BWwaV6OrWmMoPhUl5jm/FMNAnJvWQ= -github.com/gliderlabs/ssh v0.3.5 h1:OcaySEmAQJgyYcArR+gGGTHCyE7nvhEMTlYY+Dp8CpY= -github.com/gliderlabs/ssh v0.3.5/go.mod h1:8XB4KraRrX39qHhT6yxPsHedjA08I/uBVwj4xC+/+z4= github.com/go-chi/chi/v5 v5.0.3 h1:khYQBdPivkYG1s1TAzDQG1f6eX4kD2TItYVZexL5rS4= github.com/go-chi/chi/v5 v5.0.3/go.mod h1:DslCQbL2OYiznFReuXYUmQ2hGd1aDpCnlMNITLSKoi8= github.com/go-chi/cors v1.2.0 h1:tV1g1XENQ8ku4Bq3K9ub2AtgG+p16SmzeMSGTwrOKdE= github.com/go-chi/cors v1.2.0/go.mod h1:sSbTewc+6wYHBBCW7ytsFSn836hqM7JxpglAy2Vzc58= -github.com/go-git/gcfg v1.5.0 h1:Q5ViNfGF8zFgyJWPqYwA7qGFoMTEiBmdlkcfRmpIMa4= -github.com/go-git/gcfg v1.5.0/go.mod h1:5m20vg6GwYabIxaOonVkTdrILxQMpEShl1xiMF4ua+E= -github.com/go-git/go-billy/v5 v5.3.1/go.mod h1:pmpqyWchKfYfrkb/UVH4otLvyi/5gJlGI4Hb3ZqZ3W0= -github.com/go-git/go-billy/v5 v5.4.0 h1:Vaw7LaSTRJOUric7pe4vnzBSgyuf2KrLsu2Y4ZpQBDE= -github.com/go-git/go-billy/v5 v5.4.0/go.mod h1:vjbugF6Fz7JIflbVpl1hJsGjSHNltrSw45YK/ukIvQg= -github.com/go-git/go-git-fixtures/v4 v4.3.1 h1:y5z6dd3qi8Hl+stezc8p3JxDkoTRqMAlKnXHuzrfjTQ= -github.com/go-git/go-git-fixtures/v4 v4.3.1/go.mod h1:8LHG1a3SRW71ettAD/jW13h8c6AqjVSeL11RAdgaqpo= -github.com/go-git/go-git/v5 v5.5.2 h1:v8lgZa5k9ylUw+OR/roJHTxR4QItsNFI5nKtAXFuynw= -github.com/go-git/go-git/v5 v5.5.2/go.mod h1:BE5hUJ5yaV2YMxhmaP4l6RBQ08kMxKSPD4BlxtH7OjI= github.com/golang/snappy v0.0.1 h1:Qgr9rKW7uDUkrbSmQeiDsGa8SjGyCOGtuasMWwvp2P4= github.com/golang/snappy v0.0.1/go.mod h1:/XxbfmMg8lxefKM7IXC3fBNl/7bRcc72aCRzEWrmP2Q= github.com/google/go-cmp v0.5.2/go.mod h1:v8dTdLbMG2kIc/vJvl+f65V22dbkXbowE6jgT/gNBxE= github.com/google/go-cmp v0.5.9 h1:O2Tfq5qg4qc4AmwVlvv0oLiVAGB7enBSJ2x2DqQFi38= github.com/google/go-cmp v0.5.9/go.mod h1:17dUlkBOakJ0+DkrSSNjCkIjxS6bF9zb3elmeNGIjoY= -github.com/imdario/mergo v0.3.13 h1:lFzP57bqS/wsqKssCGmtLAb8A0wKjLGrve2q3PPVcBk= -github.com/imdario/mergo v0.3.13/go.mod h1:4lJ1jqUDcsbIECGy0RUJAXNIhg+6ocWgb1ALK2O4oXg= -github.com/jbenet/go-context v0.0.0-20150711004518-d14ea06fba99 h1:BQSFePA1RWJOlocH6Fxy8MmwDt+yVQYULKfN0RoTN8A= -github.com/jbenet/go-context v0.0.0-20150711004518-d14ea06fba99/go.mod h1:1lJo3i6rXxKeerYnT8Nvf0QmHCRC1n8sfWVwXF2Frvo= -github.com/jessevdk/go-flags v1.5.0/go.mod h1:Fw0T6WPc1dYxT4mKEZRfG5kJhaTDP9pj1c2EWnYs/m4= -github.com/kevinburke/ssh_config v1.2.0 h1:x584FjTGwHzMwvHx18PXxbBVzfnxogHaAReU4gf13a4= -github.com/kevinburke/ssh_config v1.2.0/go.mod h1:CT57kijsi8u/K/BOFA39wgDQJ9CxiF4nAY/ojJ6r6mM= github.com/klauspost/compress v1.13.6 h1:P76CopJELS0TiO2mebmnzgWaajssP/EszplttgQxcgc= github.com/klauspost/compress v1.13.6/go.mod h1:/3/Vjq9QcHkK5uEr5lBEmyoZ1iFhe47etQ6QUkpK6sk= github.com/kr/pretty v0.1.0/go.mod h1:dAy3ld7l9f0ibDNOQOHHMYYIIbhfbHSm3C4ZsoJORNo= @@ -53,32 +20,18 @@ github.com/kr/pty v1.1.1/go.mod h1:pFQYn66WHrOpPYNljwOMqo10TkYh1fy3cYio2l3bCsQ= github.com/kr/text v0.1.0/go.mod h1:4Jbv+DJW3UT/LiOwJeYQe1efqtUx/iVham/4vfdArNI= github.com/kr/text v0.2.0 h1:5Nx0Ya0ZqY2ygV366QzturHI13Jq95ApcVaJBhpS+AY= github.com/kr/text v0.2.0/go.mod h1:eLer722TekiGuMkidMxC/pM04lWEeraHUUmBw8l2grE= -github.com/matryer/is v1.2.0 h1:92UTHpy8CDwaJ08GqLDzhhuixiBUUD1p3AU6PHddz4A= -github.com/matryer/is v1.2.0/go.mod h1:2fLPjFQM9rhQ15aVEtbuwhJinnOqrmgXPNdZsdwlWXA= github.com/montanaflynn/stats v0.0.0-20171201202039-1bf9dbcd8cbe h1:iruDEfMl2E6fbMZ9s0scYfZQ84/6SPL6zC8ACM2oIL0= github.com/montanaflynn/stats v0.0.0-20171201202039-1bf9dbcd8cbe/go.mod h1:wL8QJuTMNUDYhXwkmfOly8iTdp5TEcJFWZD2D7SIkUc= -github.com/niemeyer/pretty v0.0.0-20200227124842-a10e7caefd8e/go.mod h1:zD1mROLANZcx1PVRCS0qkT7pwLkGfwJo4zjcN/Tysno= -github.com/pjbgf/sha1cd v0.2.3 h1:uKQP/7QOzNtKYH7UTohZLcjF5/55EnTw0jO/Ru4jZwI= -github.com/pjbgf/sha1cd v0.2.3/go.mod h1:HOK9QrgzdHpbc2Kzip0Q1yi3M2MFGPADtR6HjG65m5M= github.com/pkg/errors v0.9.1 h1:FEBLx1zS214owpjy7qsBeixbURkuhQAwrK5UwLGTwt4= github.com/pkg/errors v0.9.1/go.mod h1:bwawxfHBFNV+L2hUp1rHADufV3IMtnDRdf1r5NINEl0= github.com/pmezard/go-difflib v1.0.0 h1:4DBwDE0NGyQoBHbLQYPwSUPoCMWR5BEzIk/f1lZbAQM= github.com/pmezard/go-difflib v1.0.0/go.mod h1:iKH77koFhYxTK1pcRnkKkqfTogsbg7gZNVY4sRDYZ/4= -github.com/sergi/go-diff v1.1.0 h1:we8PVUC3FE2uYfodKH/nBHMSetSfHDR6scGdBi+erh0= -github.com/sergi/go-diff v1.1.0/go.mod h1:STckp+ISIX8hZLjrqAeVduY0gWCT9IjLuqbuNXdaHfM= -github.com/sirupsen/logrus v1.7.0/go.mod h1:yWOB1SBYBC5VeMP7gHvWumXLIWorT60ONWic61uBYv0= -github.com/skeema/knownhosts v1.1.0 h1:Wvr9V0MxhjRbl3f9nMnKnFfiWTJmtECJ9Njkea3ysW0= -github.com/skeema/knownhosts v1.1.0/go.mod h1:sKFq3RD6/TKZkSWn8boUbDC7Qkgcv+8XXijpFO6roag= github.com/stretchr/objx v0.1.0/go.mod h1:HFkY916IF+rwdDfMAkV7OtwuqBVzrE8GR6GFx+wExME= -github.com/stretchr/testify v1.2.2/go.mod h1:a8OnRcib4nhh0OaRAV+Yts87kKdq0PP7pXfy6kDkUVs= -github.com/stretchr/testify v1.4.0/go.mod h1:j7eGeouHqKxXV5pUuKE4zz7dFj8WfuZ+81PSLYec5m4= github.com/stretchr/testify v1.6.1/go.mod h1:6Fq8oRcR53rry900zMqJjRRixrwX3KX962/h/Wwjteg= github.com/stretchr/testify v1.7.0 h1:nwc3DEeHmmLAfoZucVR881uASk0Mfjw8xYJ99tb5CcY= github.com/stretchr/testify v1.7.0/go.mod h1:6Fq8oRcR53rry900zMqJjRRixrwX3KX962/h/Wwjteg= github.com/tidwall/pretty v1.0.0 h1:HsD+QiTn7sK6flMKIvNmpqz1qrpP3Ps6jOKIKMooyg4= github.com/tidwall/pretty v1.0.0/go.mod h1:XNkn88O1ChpSDQmQeStsy+sBenx6DDtFZJxhVysOjyk= -github.com/xanzy/ssh-agent v0.3.3 h1:+/15pJfg/RsTxqYcX6fHqOXZwwMP+2VyYWJeWM2qQFM= -github.com/xanzy/ssh-agent v0.3.3/go.mod h1:6dzNDKs0J9rVPHPhaGCukekBHKqfl+L3KghI1Bc68Uw= github.com/xdg-go/pbkdf2 v1.0.0 h1:Su7DPu48wXMwC3bs7MCNG+z4FhcyEuz5dlvchbq0B0c= github.com/xdg-go/pbkdf2 v1.0.0/go.mod h1:jrpuAogTd400dnrH08LKmI/xc1MbPOebTwRqcT5RDeI= github.com/xdg-go/scram v1.1.1 h1:VOMT+81stJgXW3CpHyqHN3AXDYIMsx56mEFrB37Mb/E= @@ -87,72 +40,29 @@ github.com/xdg-go/stringprep v1.0.3 h1:kdwGpVNwPFtjs98xCGkHjQtGKh86rDcRZN17QEMCO github.com/xdg-go/stringprep v1.0.3/go.mod h1:W3f5j4i+9rC0kuIEJL0ky1VpHXQU3ocBgklLGvcBnW8= github.com/youmark/pkcs8 v0.0.0-20181117223130-1be2e3e5546d h1:splanxYIlg+5LfHAM6xpdFEAYOk8iySO56hMFq6uLyA= github.com/youmark/pkcs8 v0.0.0-20181117223130-1be2e3e5546d/go.mod h1:rHwXgn7JulP+udvsHwJoVG1YGAP6VLg4y9I5dyZdqmA= -github.com/yuin/goldmark v1.4.13/go.mod h1:6yULJ656Px+3vBD8DxQVa3kxgyrAnzto9xy5taEt/CY= go.mongodb.org/mongo-driver v1.11.1 h1:QP0znIRTuL0jf1oBQoAoM0C6ZJfBK4kx0Uumtv1A7w8= go.mongodb.org/mongo-driver v1.11.1/go.mod h1:s7p5vEtfbeR1gYi6pnj3c3/urpbLv2T5Sfd6Rp2HBB8= -golang.org/x/crypto v0.0.0-20190308221718-c2843e01d9a2/go.mod h1:djNgcEr1/C05ACkg1iLfiJU5Ep61QUkGW8qpdssI0+w= -golang.org/x/crypto v0.0.0-20210921155107-089bfa567519/go.mod h1:GvvjBRRGRdwPK5ydBHafDWAxML/pGHZbMvKqRZ5+Abc= -golang.org/x/crypto v0.0.0-20220525230936-793ad666bf5e/go.mod h1:IxCIyHEi3zRg3s0A5j5BB6A9Jmi73HwBIUl50j+osU4= golang.org/x/crypto v0.0.0-20220622213112-05595931fe9d/go.mod h1:IxCIyHEi3zRg3s0A5j5BB6A9Jmi73HwBIUl50j+osU4= -golang.org/x/crypto v0.0.0-20220826181053-bd7e27e6170d/go.mod h1:IxCIyHEi3zRg3s0A5j5BB6A9Jmi73HwBIUl50j+osU4= golang.org/x/crypto v0.3.0 h1:a06MkbcxBrEFc0w0QIZWXrH/9cCX6KJyWbBOIwAn+7A= golang.org/x/crypto v0.3.0/go.mod h1:hebNnKkNXi2UzZN1eVRvBB7co0a+JxK6XbPiWVs/3J4= -golang.org/x/mod v0.6.0-dev.0.20220419223038-86c51ed26bb4/go.mod h1:jJ57K6gSWd91VN4djpZkiMVwK6gcyfeH4XE8wZrZaV4= -golang.org/x/net v0.0.0-20190620200207-3b0461eec859/go.mod h1:z5CRVTTTmAJ677TzLLGU+0bjPO0LkuOLi4/5GtJWs/s= -golang.org/x/net v0.0.0-20210226172049-e18ecbb05110/go.mod h1:m0MpNAwzfU5UDzcl9v0D8zg8gWTRqZa9RBIspLL5mdg= golang.org/x/net v0.0.0-20211112202133-69e39bad7dc2/go.mod h1:9nx3DQGgdP8bBQD5qxJ1jj9UTztislL4KSBs9R2vV5Y= -golang.org/x/net v0.0.0-20220722155237-a158d28d115b/go.mod h1:XRhObCWvk6IyKnWLug+ECip1KBveYUHfp+8e9klMJ9c= -golang.org/x/net v0.0.0-20220826154423-83b083e8dc8b/go.mod h1:YDH+HFinaLZZlnHAfSS6ZXJJ9M9t4Dl22yv3iI2vPwk= golang.org/x/net v0.2.0 h1:sZfSu1wtKLGlWI4ZZayP0ck9Y73K1ynO6gqzTdBVdPU= golang.org/x/net v0.2.0/go.mod h1:KqCZLdyyvdV855qA2rE3GC2aiw5xGR5TEjj8smXukLY= -golang.org/x/sync v0.0.0-20190423024810-112230192c58/go.mod h1:RxMgew5VJxzue5/jJTE5uejpjVlOe/izrB70Jof72aM= golang.org/x/sync v0.0.0-20210220032951-036812b2e83c/go.mod h1:RxMgew5VJxzue5/jJTE5uejpjVlOe/izrB70Jof72aM= golang.org/x/sync v0.0.0-20220722155255-886fb9371eb4 h1:uVc8UZUe6tr40fFVnUP5Oj+veunVezqYl9z7DYw9xzw= golang.org/x/sync v0.0.0-20220722155255-886fb9371eb4/go.mod h1:RxMgew5VJxzue5/jJTE5uejpjVlOe/izrB70Jof72aM= -golang.org/x/sys v0.0.0-20190215142949-d0b11bdaac8a/go.mod h1:STP8DvDyc/dI5b8T5hshtkjS+E42TnysNCUPdjciGhY= -golang.org/x/sys v0.0.0-20191026070338-33540a1f6037/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs= -golang.org/x/sys v0.0.0-20200302150141-5c8b2ff67527/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs= golang.org/x/sys v0.0.0-20201119102817-f84b799fce68/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs= -golang.org/x/sys v0.0.0-20210124154548-22da62e12c0c/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs= -golang.org/x/sys v0.0.0-20210320140829-1e4c9ba3b0c4/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs= golang.org/x/sys v0.0.0-20210423082822-04245dca01da/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs= golang.org/x/sys v0.0.0-20210615035016-665e8c7367d1/go.mod h1:oPkhp1MJrh7nUepCBck5+mAzfO9JrbApNNgaTdGDITg= -golang.org/x/sys v0.0.0-20211007075335-d3039528d8ac/go.mod h1:oPkhp1MJrh7nUepCBck5+mAzfO9JrbApNNgaTdGDITg= -golang.org/x/sys v0.0.0-20220520151302-bc2c85ada10a/go.mod h1:oPkhp1MJrh7nUepCBck5+mAzfO9JrbApNNgaTdGDITg= -golang.org/x/sys v0.0.0-20220715151400-c0bba94af5f8/go.mod h1:oPkhp1MJrh7nUepCBck5+mAzfO9JrbApNNgaTdGDITg= -golang.org/x/sys v0.0.0-20220722155257-8c9f86f7a55f/go.mod h1:oPkhp1MJrh7nUepCBck5+mAzfO9JrbApNNgaTdGDITg= -golang.org/x/sys v0.0.0-20220728004956-3c1f35247d10/go.mod h1:oPkhp1MJrh7nUepCBck5+mAzfO9JrbApNNgaTdGDITg= -golang.org/x/sys v0.0.0-20220825204002-c680a09ffe64/go.mod h1:oPkhp1MJrh7nUepCBck5+mAzfO9JrbApNNgaTdGDITg= -golang.org/x/sys v0.2.0/go.mod h1:oPkhp1MJrh7nUepCBck5+mAzfO9JrbApNNgaTdGDITg= -golang.org/x/sys v0.3.0 h1:w8ZOecv6NaNa/zC8944JTU3vz4u6Lagfk4RPQxv92NQ= -golang.org/x/sys v0.3.0/go.mod h1:oPkhp1MJrh7nUepCBck5+mAzfO9JrbApNNgaTdGDITg= golang.org/x/term v0.0.0-20201126162022-7de9c90e9dd1/go.mod h1:bj7SfCRtBDWHUb9snDiAeCFNEtKQo2Wmx5Cou7ajbmo= -golang.org/x/term v0.0.0-20210927222741-03fcf44c2211/go.mod h1:jbD1KX2456YbFQfuXm/mYQcufACuNUgVhRMnK/tPxf8= -golang.org/x/term v0.0.0-20220722155259-a9ba230a4035/go.mod h1:jbD1KX2456YbFQfuXm/mYQcufACuNUgVhRMnK/tPxf8= -golang.org/x/term v0.2.0 h1:z85xZCsEl7bi/KwbNADeBYoOP0++7W1ipu+aGnpwzRM= -golang.org/x/term v0.2.0/go.mod h1:TVmDHMZPmdnySmBfhjOoOdhjzdE1h4u1VwSiw2l1Nuc= -golang.org/x/text v0.3.0/go.mod h1:NqM8EUOU14njkJ3fqMW+pc6Ldnwhi/IjpwHt7yyuwOQ= -golang.org/x/text v0.3.3/go.mod h1:5Zoc/QRtKVWzQhOtBMvqHzDpF6irO9z98xDceosuGiQ= golang.org/x/text v0.3.6/go.mod h1:5Zoc/QRtKVWzQhOtBMvqHzDpF6irO9z98xDceosuGiQ= golang.org/x/text v0.3.7/go.mod h1:u+2+/6zg+i71rQMx5EYifcz6MCKuco9NR6JIITiCfzQ= golang.org/x/text v0.4.0 h1:BrVqGRd7+k1DiOgtnFvAkoQEWQvBc25ouMJM6429SFg= golang.org/x/text v0.4.0/go.mod h1:mrYo+phRRbMaCq/xk9113O4dZlRixOauAjOtrjsXDZ8= golang.org/x/tools v0.0.0-20180917221912-90fa682c2a6e/go.mod h1:n7NCudcB/nEzxVGmLbDWY5pfWTLqBcC2KZ6jyYvM4mQ= -golang.org/x/tools v0.0.0-20191119224855-298f0cb1881e/go.mod h1:b+2E5dAYhXwXZwtnZ6UAqBI28+e2cm9otk0dWdXHAEo= -golang.org/x/tools v0.1.12/go.mod h1:hNGJHUnrk76NpqgfD5Aqm5Crs+Hm0VOH/i9J2+nxYbc= -golang.org/x/xerrors v0.0.0-20190717185122-a985d3407aa7/go.mod h1:I/5z698sn9Ka8TeJc9MKroUUfqBBauWjQqLJ2OPfmY0= golang.org/x/xerrors v0.0.0-20191204190536-9bdfabe68543/go.mod h1:I/5z698sn9Ka8TeJc9MKroUUfqBBauWjQqLJ2OPfmY0= gopkg.in/check.v1 v0.0.0-20161208181325-20d25e280405/go.mod h1:Co6ibVJAznAaIkqp8huTwlJQCZ016jof/cbN4VW5Yz0= gopkg.in/check.v1 v1.0.0-20180628173108-788fd7840127/go.mod h1:Co6ibVJAznAaIkqp8huTwlJQCZ016jof/cbN4VW5Yz0= -gopkg.in/check.v1 v1.0.0-20190902080502-41f04d3bba15/go.mod h1:Co6ibVJAznAaIkqp8huTwlJQCZ016jof/cbN4VW5Yz0= -gopkg.in/check.v1 v1.0.0-20200227125254-8fa46927fb4f/go.mod h1:Co6ibVJAznAaIkqp8huTwlJQCZ016jof/cbN4VW5Yz0= -gopkg.in/check.v1 v1.0.0-20201130134442-10cb98267c6c h1:Hei/4ADfdWqJk1ZMxUNpqntNwaWcugrBjAiHlqqRiVk= -gopkg.in/check.v1 v1.0.0-20201130134442-10cb98267c6c/go.mod h1:JHkPIbrfpd72SG/EVd6muEfDQjcINNoR0C8j2r3qZ4Q= -gopkg.in/warnings.v0 v0.1.2 h1:wFXVbFY8DY5/xOe1ECiWdKCzZlxgshcYVNkBHstARME= -gopkg.in/warnings.v0 v0.1.2/go.mod h1:jksf8JmL6Qr/oQM2OXTHunEvvTAsrWBLb6OOjuVWRNI= -gopkg.in/yaml.v2 v2.2.2/go.mod h1:hI93XBmqTisBFMUTm0b8Fm+jr3Dg1NNxqwp+5A1VGuI= -gopkg.in/yaml.v2 v2.2.4/go.mod h1:hI93XBmqTisBFMUTm0b8Fm+jr3Dg1NNxqwp+5A1VGuI= gopkg.in/yaml.v3 v3.0.0-20200313102051-9f266ea9e77c/go.mod h1:K4uyk7z7BCEPqu6E+C64Yfv1cQ7kz7rIZviUmN+EgEM= -gopkg.in/yaml.v3 v3.0.0/go.mod h1:K4uyk7z7BCEPqu6E+C64Yfv1cQ7kz7rIZviUmN+EgEM= gopkg.in/yaml.v3 v3.0.1 h1:fxVm/GzAzEWqLHuvctI91KS9hhNmmWOoWu0XTYJS7CA= gopkg.in/yaml.v3 v3.0.1/go.mod h1:K4uyk7z7BCEPqu6E+C64Yfv1cQ7kz7rIZviUmN+EgEM= diff --git a/pkg/database/mongodb.go b/pkg/database/mongodb.go index cd7111b..f35e01a 100644 --- a/pkg/database/mongodb.go +++ b/pkg/database/mongodb.go @@ -20,32 +20,32 @@ type Mb3MongoDB struct { dirty bool } -func (self *Mb3MongoDB) GetRecord(s *string) (massbank.Massbank, error) { +func (db *Mb3MongoDB) GetRecord(s *string) (massbank.Massbank, error) { //TODO implement me panic("implement me") } -func (self *Mb3MongoDB) GetRecords(filters Filters, limit uint64) ([]massbank.Massbank, error) { +func (db *Mb3MongoDB) GetRecords(filters Filters, limit uint64) ([]massbank.Massbank, error) { //TODO implement me panic("implement me") } -func (self *Mb3MongoDB) AddRecords(records []massbank.Massbank) error { +func (db *Mb3MongoDB) AddRecords(records []massbank.Massbank) error { //TODO implement me panic("implement me") } -func (self *Mb3MongoDB) UpdateRecords(records []massbank.Massbank, add bool) (uint64, error) { +func (db *Mb3MongoDB) UpdateRecords(records []massbank.Massbank, add bool) (uint64, error) { //TODO implement me panic("implement me") } -func (self *Mb3MongoDB) AddRecord(record massbank.Massbank) error { +func (db *Mb3MongoDB) AddRecord(record massbank.Massbank) error { //TODO implement me panic("implement me") } -func (self *Mb3MongoDB) UpdateRecord(record massbank.Massbank, add bool) error { +func (db *Mb3MongoDB) UpdateRecord(record massbank.Massbank, add bool) error { //TODO implement me panic("implement me") } @@ -62,62 +62,62 @@ func NewMongoDB(config DBConfig) (*Mb3MongoDB, error) { }, nil } -func (self *Mb3MongoDB) SetUser(user string) *Mb3MongoDB { - self.dirty = self.dirty || user != self.user - self.user = user - return self +func (db *Mb3MongoDB) SetUser(user string) *Mb3MongoDB { + db.dirty = db.dirty || user != db.user + db.user = user + return db } -func (self *Mb3MongoDB) SetPassword(password string) *Mb3MongoDB { - self.dirty = self.dirty || password != self.pwd - self.pwd = password - return self +func (db *Mb3MongoDB) SetPassword(password string) *Mb3MongoDB { + db.dirty = db.dirty || password != db.pwd + db.pwd = password + return db } -func (self *Mb3MongoDB) SetHost(host string) *Mb3MongoDB { - self.dirty = self.dirty || host != self.host - self.host = host - return self +func (db *Mb3MongoDB) SetHost(host string) *Mb3MongoDB { + db.dirty = db.dirty || host != db.host + db.host = host + return db } -func (self *Mb3MongoDB) SetDbName(dbname string) *Mb3MongoDB { - self.dirty = self.dirty || dbname == self.dbname - self.dbname = dbname - return self +func (db *Mb3MongoDB) SetDbName(dbname string) *Mb3MongoDB { + db.dirty = db.dirty || dbname == db.dbname + db.dbname = dbname + return db } -func (self *Mb3MongoDB) SetPort(port uint16) *Mb3MongoDB { - self.dirty = self.dirty || port == self.port - self.port = port - return self +func (db *Mb3MongoDB) SetPort(port uint16) *Mb3MongoDB { + db.dirty = db.dirty || port == db.port + db.port = port + return db } -func (self *Mb3MongoDB) Connect() error { +func (db *Mb3MongoDB) Connect() error { ctx := context.TODO() - if self.dirty && self.database != nil { - self.database.Client().Disconnect(ctx) - self.database = nil + if db.dirty && db.database != nil { + db.database.Client().Disconnect(ctx) + db.database = nil } - if self.database == nil { + if db.database == nil { clOptions := options.Client().SetAuth(options.Credential{ AuthMechanism: "SCRAM-SHA-256", AuthMechanismProperties: nil, AuthSource: "admin", - Username: self.user, - Password: self.pwd, + Username: db.user, + Password: db.pwd, PasswordSet: true, - }).SetAppName("Massbank3API").SetHosts([]string{self.host + ":" + strconv.FormatInt(int64(self.port), 10)}) + }).SetAppName("Massbank3API").SetHosts([]string{db.host + ":" + strconv.FormatInt(int64(db.port), 10)}) dbclient, err := mongo.Connect(ctx, clOptions) - db := dbclient.Database(self.dbname) + mongoDb := dbclient.Database(db.dbname) if err != nil { return err } - self.database = db - self.dirty = false + db.database = mongoDb + db.dirty = false } - return self.database.Client().Ping(ctx, nil) + return db.database.Client().Ping(ctx, nil) } -func (self *Mb3MongoDB) Disconnect() error { - return self.database.Client().Disconnect(context.TODO()) +func (db *Mb3MongoDB) Disconnect() error { + return db.database.Client().Disconnect(context.TODO()) } diff --git a/pkg/massbank/parser.go b/pkg/massbank/parser.go index 3b7ac7b..782f016 100644 --- a/pkg/massbank/parser.go +++ b/pkg/massbank/parser.go @@ -95,7 +95,7 @@ func (p *RecordDeprecated) Parse(s string) error { } return nil } - return errors.New("Could not parse DEPRECATED tag.") + return errors.New("could not parse DEPRECATED tag") } func (names *RecordAuthorNames) Parse(s string) error { @@ -242,13 +242,13 @@ func (mb *Massbank) parsePeakValue(line string, lineNum int) error { var err error var rel uint64 if mz, err = strconv.ParseFloat(svals[0], 32); err != nil { - return errors.New("Could not parse mz value") + return errors.New("could not parse mz value") } if intens, err = strconv.ParseFloat(svals[1], 32); err != nil { - return errors.New("Could not parse intensity value") + return errors.New("could not parse intensity value") } if rel, err = strconv.ParseUint(svals[2], 10, 32); err != nil { - return errors.New("Could not parse relative intensity") + return errors.New("could not parse relative intensity") } mb.Peak.Peak.Mz = append(mb.Peak.Peak.Mz, mz) mb.Peak.Peak.Intensity = append(mb.Peak.Peak.Intensity, intens) diff --git a/scripts/config-openapi.yaml b/scripts/config-openapi.yaml index 143e452..543f26e 100644 --- a/scripts/config-openapi.yaml +++ b/scripts/config-openapi.yaml @@ -15,4 +15,5 @@ templateDir: ./go-server-template gitUserId: MassBank gitRepoId: MassBank3/cmd/mb3server enablePostProcessFile: true -generateAliasAsModel: false \ No newline at end of file +generateAliasAsModel: false +hideGenerationTimestamp: true \ No newline at end of file diff --git a/scripts/go-server-template/routers.mustache b/scripts/go-server-template/routers.mustache index 7bc7d01..7a604b0 100644 --- a/scripts/go-server-template/routers.mustache +++ b/scripts/go-server-template/routers.mustache @@ -150,12 +150,12 @@ func readFileHeaderToTempFile(fileHeader *multipart.FileHeader) (*os.File, error defer formFile.Close() - fileBytes, err := ioutil.ReadAll(formFile) + fileBytes, err := io.ReadAll(formFile) if err != nil { return nil, err } - file, err := ioutil.TempFile("", fileHeader.Filename) + file, err := os.CreateTemp("", fileHeader.Filename) if err != nil { return nil, err }