sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
8ff708da38b57b82bdb6e077c8da8cdeea8c06ce54d8369d599636248d380f52 | Fortran | 23,465 | 933 | ! ---------------------------------------------------------------------
!
! File: 'ConsoleMessaged.f90'
! Author: J. Barthel, juribarthel@gmx.de
! Date: 05.10.2012
!
! Subroutines for display of a simple messages in console apps
!
! - use ConsoleMessages
!
! - call CSM_VLEVEL to initialize the verbosity level
! - call ... |
32c33811048651a369d6bf3e0478859f1416ebbb6727fa673dd29bc65853b5a4 | Fortran | 24,420 | 667 | !**********************************************************************
!
! PROGRAM: msa, version 1.1.5
! FILE: msa.f90
! PURPOSE: Entry point for the console application MSA.
! Multislice calculation for electron diffraction
!
!**********************************************************************
! ... |
5809735e3aea69a848c2cfb708225eb70f0c19dd135dd29f48a3ee392448f114 | Fortran | 35,880 | 979 | !****************************************************************************
!
! wavimg.f90
!
! J. Barthel, FZ-Jülich, 2008 - 2020
!
!****************************************************************************
!
! PROGRAM: wavimg
!
! PURPOSE: Entry point for the console application.
! CTEM image calcul... |
b56cfb828a88e7437a469792c1edc27b9ed6ed61b90a0775ad78fdf73f244bc8 | Fortran | 36,498 | 1,186 | !**********************************************************************!
!
! file: fitfeprm.f90
! author: j.barthel (ju.barthel-at-fz-juelich.de) 2013
!
! Implementation of routines for least-squares minimization
! fitting of a parameterization to a table of given
! electron scattering factors.
!
! Incorporate by USE ... |
cb4f5040a4f5c942f50ce2f2d9fae8ed20cadeb9986905bd4dcb18cbe44db5c1 | Fortran | 40,022 | 1,432 | !
!--------------------------------------------------------------------
!
! A fast multi-particle scattering code, based on the code in
! hfmm3d.f of the Flatiron Institute FMM3D library.
!
! Original skeleton code by Manas Rachh, Leslie Greengard, etc.
! FMPS re-write by Mike O'Neil, 2019
! oneil@cims.nyu.edu
!
! The ... |
f3af4d5793b82e87d9437f4da18d13359337274a1756b81ca54baccf685ea1ee | Fortran | 41,244 | 1,236 | ! --------------------------------------------------------------------------
!
! subroutine PrepareIC
!
! Prepares static arrays for coherent image calculation
! This needs to be done just once before calling the other
! routines in this file.
!
! - input: 1 = prepare, 0 = unprepare
!
! - prepare
! allocates and ini... |
2a54a41fe34b13f3d04aa1e28a1b4016582236ff8a8ba52f40ec596abedb06ca | Fortran | 42,928 | 979 | ! ******************************************************************** !
!
! Implementation of Waasmaier & Kirfel X-ray atomic form factors
!
! Acta Cryst. A 51 (1995) 416 - 431
!
! by J. Barthel, Forschungszentrum Jülich GmbH, Jülich, Germany
! RWTH Aachen University, Aachen, Germany
! 2025-Jan-24
!
! r... |
7ac11fc3772d7f6a50a0530dd372bd73ef7508291674410902aae7968566af93 | Fortran | 45,174 | 1,396 | MODULE symops
!
!
!**********************************************************************************
!* SYMOPS *
!**********************************************************************************
!* This module handles symmetry operations of line... |
0e6d6571a28f4cd6ab50962d910e06226370a1c3283201cbf71d49462be65c7b | Fortran | 48,124 | 1,394 | ! ******************************************************************** !
!
! Implementation of Weickenmeier & Kohl electron atomic form factors
!
! Acta Cryst. A 47 (1991) 590 - 597
!
! by J. Barthel, Forschungszentrum Jülich GmbH, Jülich, Germany
! RWTH Aachen University, Aachen, Germany
! 2025-Jan-24
!... |
8af7976bf04a32220e278dc7f324077a2e8509974776edeb73b174872547026d | Fortran | 51,757 | 2,096 | !**********************************************************************!
!**********************************************************************!
! !
! file "binio".f95 !
! ... |
c8a2bdcce22d2d1842c3a20001a18651428e8bceb4546b8138eb2f9fdb8f2fb9 | Fortran | 62,297 | 2,070 | !**********************************************************************!
!**********************************************************************!
!
! FILE: "3dpot.f90"
!
! AUTHOR: Dr. J. Barthel, ju.barthel@fz-juelich.de
! Ernst Ruska-Centre
! Forschungszentrum Jülich GmbH, 52425 Jülich, Germany
! ... |
5d7f96871ae8343e2f34af26717ecd378b0ac7810aae6c687140e7b60e08f9e3 | Fortran | 67,592 | 2,353 | !**********************************************************************!
!**********************************************************************!
!
! FILE: "fscatab.f90"
!
! AUTHOR: Dr. J. Barthel
! Forschungszentrum Jülich
! Jülich, Germany
!
! PURPOSE: Implementations for epw simulations
! In... |
fea2d43ac31089cc404a60b39ccff1832436843a8f0b191f4aaf15f04e0ca829 | Fortran | 69,617 | 2,158 | !**********************************************************************!
!**********************************************************************!
!
! FILE: "celslcsubs.f90"
!
! AUTHOR: Dr. J. Barthel
! Ernst Ruska-Centre
! Forschungszentrum Jülich GmbH, 52425 Jülich, Germany
!
! PURPOSE: Implementation ... |
545ebdfb79d664e7a56a5dce99fe1332d35a31c1e1b57fe154742e88b1d7fe86 | Fortran | 75,531 | 2,435 | !**********************************************************************!
!**********************************************************************!
! !
! File : MultiSlice.f90 !
! ... |
77f1a7386b9ef1f235f7fdad6504e04748c046fc5fb9479c1f10d204c31062d5 | Fortran | 77,582 | 2,440 | !**********************************************************************!
!**********************************************************************!
! !
! File : STEMfunction !
! ... |
dcbeb0bae8e4a32da43b6b8345025d6a96a22e6cc6636b2be836471397c9ea91 | Fortran | 83,696 | 2,412 | !**********************************************************************!
!**********************************************************************!
!
! F90 Module - cifio (CIF)
!
! Author: Dr. J. Barthel
! Forschungszentrum Juelich GmbH
! Jülich, Germany
! ju.barthel@fz-juelich.de
! first ... |
0c3c76c196b80f289ac32f5de57ad445f1bf45a4b193d45eb555f28d62bfd507 | Fortran | 85,245 | 2,701 | !**********************************************************************!
!**********************************************************************!
! !
! File : emsdata.f90 !
! ... |
a2464476f507476dcbc249ad3d97e2612e836f30599f3648c09b8e7fc596da0c | Fortran | 102,282 | 4,126 | !**********************************************************************!
!**********************************************************************!
! !
! file "BasicFuncs".f95 !
! ... |
0aab378772d3dc7dc6be32ca014f131e8eea0de770f756b1b5390556279312b0 | Fortran | 110,609 | 3,713 | !*********************************************************************!
! !
! MODULE AberrationFunctions !
! -------------------------- !
! ... |
949a470bc18f5bcba9be9252ed0263a953e2033d648c06a1a6e45e5d8ba34a5e | Fortran | 114,789 | 3,956 | !*********************************************************************!
! !
! MODULE STEMfunctions !
! -------------------- !
! ... |
670be905d8e2e9154c2235fbc5d16ef36159ea590036f63ebcb303af5ad12f21 | Fortran | 122,996 | 4,147 | !**********************************************************************!
!**********************************************************************!
!
! FILE: "wavimgsubs.f90"
!
! AUTHOR: Dr. J. Barthel
! Forschungszentrum Jülich
! Jülich, Germany
!
! PURPOSE: Implementations for image simulations
!
! VERS... |
9b2d35c30fc1d7af245fd99196b2b8cc02c027cb9fd06309dfb2b50881679667 | Fortran | 140,908 | 3,941 | !**********************************************************************!
!**********************************************************************!
! !
! File : msaparams.f90 !
! ... |
3201a8d83ba2edefda76bf3a49233790d0e4501e99d931a2f9454f567af8dbaa | Fortran | 200,000 | 5,612 | MODULE spacegroups
!
!**********************************************************************************
!* SPACEGROUPS *
!**********************************************************************************
!* This module provides space group symmetry da... |
02eb6c4988be20b6144f458ed97e09c356bbd6c41aecd07cabccc54d62e7e53f | Fortran | 200,002 | 6,159 | !**********************************************************************!
!**********************************************************************!
!
! F90 Module - CellSlice (CS)
!
! Author: Dr. J. Barthel
! Forschungszentrum Juelich GmbH
! Jülich, Germany
! ju.barthel@fz-juelich.de
! fir... |
48e61e965f05c3d4e2f078ccf65b84609997f5f16f3faa6c952b59cda0bf845f | Fortran | 200,002 | 6,138 | !**********************************************************************!
!**********************************************************************!
! !
! File : msasub.f90 !
! ... |
4ec053ef358706d5a9b90205a553307343a6a28ba177b9342fbad090da9fe0a5 | Go | 69 | 7 | package main
import "testing"
func Test2(t *testing.T) {
main()
}
|
b29625eb2dcc6100179e6dab35b0a0cdfceec5a2dc61ef6e9b3033f1076fbb56 | Go | 69 | 7 | package main
import "testing"
func Test4(t *testing.T) {
main()
}
|
f8408c12e2d64c4a62c0f1da2a358691d94df905c802b36577ca937b515b8644 | Go | 254 | 18 | package main
import "strings"
type flagSlice []string
func (i *flagSlice) String() string {
if i == nil {
return ""
}
return strings.Join([]string(*i), "\t")
}
func (i *flagSlice) Set(value string) error {
*i = append(*i, value)
return nil
}
|
05f34171104accefc503a260970f8486dbf2813502cb6ea992d0fd5ab1fd1ca4 | Go | 372 | 14 | package bulkprocess
type FieldID string
const (
AorticDistensibility FieldID = "20210"
BloodFlow FieldID = "20213"
CineTagging FieldID = "20211"
SHMOLLI FieldID = "20214"
LVOT FieldID = "20212"
LAX FieldID = "20208"
Scout FieldID ... |
028b0b091362bc5ffda6a0e757873ba0fd137d361498b2b0d6feed572a9378d2 | Go | 467 | 22 | package main
import (
"math/rand"
"time"
)
func init() {
// Ensure different folder names on each run
rand.Seed(time.Now().UTC().UnixNano())
}
// RandOrthoglyphs produces a string of length n randomly.
func RandOrthoglyphs(n int) string {
var letters = []rune("abcdefghijklmnopqrstuvwxyzABCDEFGHIJKLMNOPQRSTUVWXY... |
8c70f8620c5e2d654164220fe912b0f54a38218d206dab243d5ee07ce3d323b2 | Go | 582 | 23 | package main
func main() {
// http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=41253
// Run and merge from 3 separate queries:
//
// 1) for ICD/opcode fields, look into hesin
// 2) for special fields with dates, look at their dates
// 3) for all other fields, use the enrollment date based on their array_idx
... |
dc38bab1aed6220591fe7d613c131b2e83ed42ceac9ddabfa5aef266c049a6ae | Go | 591 | 29 | package bulkprocess
import (
"fmt"
"path/filepath"
"strings"
)
type ZipMetadata struct {
SampleID string
FieldID string
Instance string
Index string
}
func zipPathToMetadata(path string) (ZipMetadata, error) {
filename := filepath.Base(path)
// Remove .zip
name := strings.Split(filename, ".")[0]
dat... |
428ec3c383e265d53860755a2ead857ce0fa6e56b48739697972b8a5c2be54c1 | Go | 1,078 | 70 | package main
import (
"encoding/csv"
"flag"
"fmt"
"io"
"log"
"os"
"github.com/carbocation/genomisc"
)
const (
// .sample file field columns
ID_1 = iota
ID_2
missing
sex
)
func main() {
var (
samplePath string
)
flag.StringVar(&samplePath, "sample", "", "genotyping .sample file for the UKBB")
flag... |
f7112d87ad7863ccbe0920faade247a7d4d2e75cecf862085999338fa8a87282 | Go | 1,199 | 53 | package main
import (
"fmt"
"cloud.google.com/go/bigquery"
"google.golang.org/api/iterator"
)
func BigQuerySingleFieldFirst(wbq *WrappedBigQuery, fieldID int64) (map[int64]string, error) {
out := make(map[int64]string)
query := wbq.Client.Query(fmt.Sprintf(`SELECT *
FROM %s.phenotype
WHERE 1=1
AND FieldID=@Fi... |
8ca9bab09bf4ce410d8f70daa75cb89850237419a01a7f7d6011a3460353c87c | Go | 1,260 | 71 | package main
import (
"fmt"
"time"
)
func TimeToUKBDate(t time.Time) string {
if t.Equal(time.Time{}) {
return NullMarker
}
return t.Format("2006-01-02")
}
func TimesToFractionalYears(earlier, later time.Time) string {
if later.Before(earlier) {
return NullMarker
}
y, m, d, h, min, sec := time_diff(earl... |
a80382dacb5e3fed6d1ca325680c6bc73c7a9f14cec49fc60ab9e50a9c1208ba | Go | 1,287 | 73 | package main
import (
"fmt"
"time"
)
const NullMarker = "NULL"
func TimeToUKBDate(t time.Time) string {
if t.Equal(time.Time{}) {
return NullMarker
}
return t.Format("2006-01-02")
}
func TimesToFractionalYears(earlier, later time.Time) string {
if later.Before(earlier) {
return NullMarker
}
y, m, d, h,... |
cbcad506a3ddd02420f3b2d972e3c8648fac06bf894d4af9badc6636d82d69aa | Go | 1,390 | 65 | package main
var (
// These identify which FieldIDs should be special-cased: either to the
// HESIN table or the table with fields that have a specially-known date.
// All other fields can be queried against the main phenotype table, with an
// assumed date of whatever makes the most sense for your purposes
// (g... |
be07f81256d1159023836c5bc96d284c9951df01183420963db16d5391102f6d | Go | 1,400 | 66 | package bulkprocess
import (
"fmt"
"time"
"github.com/araddon/dateparse"
)
type DicomOutput struct {
SampleID string
ZipFile string
FieldID string
Instance string
Index string
Dicom DicomRow
DicomMeta DicomMeta
}
type DicomRow struct {
Filename string
PatientID string
Stu... |
76000974fc912f856726648577f3549f1ad3755b60ac2361bd985eaeae18bc5f | Go | 1,513 | 66 | package main
import (
"bytes"
"fmt"
"image"
"image/color"
"image/jpeg"
"io"
"io/ioutil"
"github.com/gradienthealth/dicom"
"github.com/gradienthealth/dicom/dicomtag"
)
// Takes in a dicom file (in bytes), outputs one or more jpeg file equivalents
// (in bytes)
func DicomToJpeg(dicomReader io.Reader) ([][]byt... |
a423f3d94cc3476cd7e312d204fe5cc152ba3d3e66c7e7e690c0eeb9d113468a | Go | 1,703 | 94 | package main
import (
"fmt"
"strings"
"time"
"gopkg.in/guregu/null.v3"
)
type CensorResult struct {
SampleID int64
// In the database, populate with a list of fields that we would like to
// have (e.g., month of birth, lost to followup) but which were not present,
// so we know if the table was constructed ... |
3f9693f766b7de8fea8fd6401b789b270cb90988e520a97d7b3c293fa9f7c2af | Go | 1,732 | 94 | package main
import (
"bytes"
"encoding/csv"
"flag"
"fmt"
"io"
"log"
"strings"
"github.com/gobuffalo/packr"
)
const (
GeneStableID int = iota
TranscriptStableID
ProteinStableID
Chromosome
GeneStartOneBased
GeneEndOneBased
Strand
TranscriptStartOneBased
TranscriptEndOneBased
TranscriptLengthIncludin... |
3082c5b2137095bfcc791004eabdcf88f19ee61e6699c1737910dcee09c4e1d3 | Go | 1,850 | 54 | package main
import (
"context"
"flag"
"log"
"os"
"cloud.google.com/go/bigquery"
)
const NullMarker = "NA"
type SamplePheno struct {
SampleID int64 `bigquery:"sample_id"`
Value string `bigquery:"value"`
FieldID int64 `bigquery:"FieldID"`
Instance int... |
ddd53767e15de741d775c901c0c499f03d94bbfe287f6a44694a45bcee0a8139 | Go | 1,866 | 95 | package main
import (
"bytes"
"encoding/csv"
"flag"
"fmt"
"io"
"log"
"net/http"
"strings"
)
const (
ExpectedRows = 3
)
func main() {
var (
codingPath string
)
flag.StringVar(&codingPath, "coding", "https://raw.githubusercontent.com/OxWearables/ukb_download_and_prep_template/main/Codings_Showcase.csv",... |
2b8ac1c065dc27b6390083d5c6d860fd03f358ec0f3141afb47a8f7a5a6de1a5 | Go | 2,046 | 101 | package main
import (
"bytes"
"encoding/csv"
"flag"
"fmt"
"io"
"log"
// "os"
"net/http"
"strings"
)
const (
ExpectedRows = 17
)
func main() {
var (
dictPath string
)
flag.StringVar(&dictPath, "dict", "https://biobank.ndph.ox.ac.uk/~bbdatan/Data_Dictionary_Showcase.tsv", "URL to CSV file with the UK... |
ef2d75e9285d2d970ac044ae878b202c9733ff033e865b8623a0d0b9cd83f3c5 | Go | 2,605 | 95 | package main
import (
"bufio"
"context"
"flag"
"log"
"os"
"path"
"strings"
"cloud.google.com/go/bigquery"
)
type WrappedBigQuery struct {
Context context.Context
Client *bigquery.Client
Project string
Database string
}
var (
BufferSize = 4096 * 8
STDOUT = bufio.NewWriterSize(os.Stdout, BufferS... |
8782ffdb22c4f20df9cbcb96944b7b2b857a09c19b98392b12b5d6ee6ab3d5d4 | Go | 2,725 | 109 | package main
import (
"encoding/csv"
"flag"
"fmt"
"log"
"os"
"os/exec"
"time"
)
func main() {
// Consume a .bulk file
// Download all data with ukbfetch
var bulkPath, ukbKey, ukbFetch string
var concurrency int
flag.StringVar(&bulkPath, "bulk", "", "Path to *.bulk file, as specified by UKBB.")
flag.Str... |
4ea13af6a692680b2dc6257cf47ec3192af93bf57fffa3e84badfffe0137ef5e | Go | 2,895 | 130 | package main
import (
"flag"
"fmt"
"io/ioutil"
"log"
"os"
"runtime"
"strings"
"github.com/broadinstitute/ml4h/go/bulkprocess"
)
func main() {
// Makes one big combined manifest
// Emits to stdout
var path string
flag.StringVar(&path, "path", "./", "Path where the UKBB bulk .zip files are being held.")
... |
a8d0ba3416a9071274e2e5fd1e93dc776aab97e02abc5c11fe62daa6ca71e3b4 | Go | 3,019 | 127 | package main
import (
"bytes"
"encoding/csv"
"flag"
"fmt"
"io"
"io/ioutil"
"log"
"path/filepath"
"strings"
)
func main() {
// Need:
// - Folder containing filenames with filename containing the lookup, and text of LVEF
// - LVEF file suffix.
// - Filename with sample ID
var LVEFFolder, SuffixValue, Man... |
2e7baf9065db684e8bd9c9192cb5eba84b4a81dca7ee8b55e21b9fc12a798a3f | Go | 3,391 | 143 | package bulkprocess
import (
"fmt"
"io"
"io/ioutil"
"strconv"
"github.com/gradienthealth/dicom"
"github.com/gradienthealth/dicom/dicomtag"
)
// DicomMeta holds a small subset of the available metadata which we consider to
// be useful from dicom images.
type DicomMeta struct {
HasOverlay bool
OverlayFra... |
6e4d8271bf5b96a04cb6b5f4ff6f115d6ef90d71ae7e1e0ef89722bb57182200 | Go | 4,544 | 176 | package bulkprocess
import (
"fmt"
"image"
"image/color"
"io"
"io/ioutil"
"log"
"github.com/gradienthealth/dicom"
"github.com/gradienthealth/dicom/dicomtag"
)
// DicomMeta holds a small subset of the available metadata which we consider to
// be useful from dicom images.
type DicomOverlayOpts struct {
TopLe... |
0c3688db4feb4b23bb8dae5490d397bdc101fb3d6caba1dade178adfd59bf404 | Go | 5,102 | 194 | package main
import (
"flag"
"fmt"
"io/ioutil"
"log"
"strconv"
"image"
"image/color"
"image/jpeg"
"math"
"os"
"sync"
"github.com/gradienthealth/dicom"
"github.com/gradienthealth/dicom/dicomlog"
"github.com/gradienthealth/dicom/dicomtag"
)
// See 'batcher' for a process that can convert dicoms to jpegs... |
09703e644401c9cfa1c75fbbf0cdd1bbce10cbf3283342545d1e2e49da89cccc | Go | 5,345 | 222 | package main
import (
"context"
"fmt"
"log"
"time"
"cloud.google.com/go/bigquery"
)
func Censor(BQ *WrappedBigQuery, deathCensorDateString, phenoCensorDateString string) error {
var err error
var res map[int64]string
var out = make(map[int64]CensorResult)
// connect to BigQuery
BQ.Context = context.Backgro... |
60658341f93ada537f1991bca1c59bb01bc42e2238ab3fd084a3e33d11e89c58 | Go | 7,139 | 265 | package main
import (
"archive/zip"
"bytes"
"encoding/csv"
"flag"
"fmt"
"image/png"
"io"
"io/ioutil"
"log"
"os"
"path/filepath"
"strconv"
"strings"
"github.com/broadinstitute/ml4h/go/bulkprocess"
)
var (
ZipColumn = -1
DicomColumn = -1
)
func main() {
// Consumes a batch list that contains zipfil... |
23a3be1e4d4e528918cd9e453dc4438d0177d68ba0ff3a140b9bf46dc0fc92d5 | Go | 7,368 | 252 | package main
import (
"encoding/csv"
"errors"
"fmt"
"log"
"os"
"strconv"
"strings"
)
type TabEntry struct {
FieldID int
Values []string
Exclude bool
}
// The UK Biobank keys up the ICD and OPCS codes without any decimals, so e.g.,
// K41.2 becomes K412. You can look up the true value using the coding tabl... |
fb62ec721983708e9bfad998a175939d8bec8eb917992112f406802a85cccfff | Go | 9,180 | 352 | package bulkprocess
import (
"archive/zip"
"bufio"
"bytes"
"encoding/csv"
"fmt"
"io"
"log"
"os"
"path"
"strings"
"github.com/davecgh/go-spew/spew"
"github.com/jmoiron/sqlx"
)
// Many of the manifest.csv files are invalid. They use commas as delimiters and
// do not use quotes, and yet they have fields (l... |
3a322cb22bb81bdbc8c6c606532dc657a4ebe0603f9d91cd1f379be240403fce | Go | 11,192 | 397 | package main
import (
"bufio"
"context"
"encoding/csv"
"flag"
"fmt"
"io"
"log"
"os"
"sort"
"strconv"
"strings"
"cloud.google.com/go/bigquery"
"github.com/carbocation/genomisc"
"google.golang.org/api/iterator"
)
const (
// pheno file field columns
eid = iota
)
type SamplePheno struct {
Column
Sampl... |
2bf7f08058e3dc89a715a2a3b4af74440e8fbbb5440101016f63afeb850d920c | Go | 17,376 | 411 | package main
import (
"fmt"
"os"
"strconv"
"strings"
"time"
"github.com/carbocation/pfx"
"cloud.google.com/go/bigquery"
"google.golang.org/api/iterator"
)
type Result struct {
SampleID int64 `bigquery:"sample_id"`
HasDisease bigquery.NullInt64 `bigquery:"has_di... |
f2b9df7874c53fad7b33060bad05e3b407bf8ccfc3be66f59bb2fede8313eabd | Go | 140,120 | 3,930 | // Copyright (c) 2019, The Emergent Authors. All rights reserved.
// Use of this source code is governed by a BSD-style
// license that can be found in the LICENSE file.
//color diff runs a color learning task, looking at differentiation of color.
//based on ra25:
// ra25 runs a simple random-associator four-layer le... |
7303695cc358ddcfe813cd5e04541cfb0708f120c077e9880ce735f91839d29b | Go | 144,659 | 4,046 | // Copyright (c) 2019, The Emergent Authors. All rights reserved.
// Use of this source code is governed by a BSD-style
// license that can be found in the LICENSE file.
//color diff runs a color learning task, looking at differentiation of color.
//based on ra25:
// ra25 runs a simple random-associator four-layer le... |
ce4a1806771f12f2e60d4ba36903243021015171b88a4c599b1af0c6134440ea | Go | 145,747 | 4,043 | // Copyright (c) 2019, The Emergent Authors. All rights reserved.
// Use of this source code is governed by a BSD-style
// license that can be found in the LICENSE file.
//color diff runs a color learning task, looking at differentiation of color.
//based on ra25:
// ra25 runs a simple random-associator four-layer le... |
584f8672c835306813e3d53180f077ca94a8fbd86c1efe4820700e1704c26c40 | Java | 100 | 7 | package io.ray.benchmark;
public enum PressureTestType {
SINGLE_LATENCY,
RATE_LIMITER,
MAX
}
|
d9e2e5f71f4aa744046610139e353dab64b9749cddaa7cb340a4b937b4ea2324 | Java | 126 | 4 | package io.ray.api.function;
/** Interface of all `RayFuncVoidX` classes. */
public interface RayFuncVoid extends RayFunc {}
|
b386a22627df635926ebe58a5ab9786cacc9881f06af9f3a4d6d0f71a5aa7785 | Java | 127 | 12 | package io.ray.runtime.metric;
/** Types of the metric. */
public enum MetricType {
COUNT,
GAUGE,
SUM,
HISTOGRAM
}
|
3061406ca0fda9e4fd18f9f9da1780f118e56dc3e6a71635e8b4ffe9cf7f0490 | Java | 129 | 8 | package io.ray.test;
public interface ExampleInterface {
default String echo(String str) {
return "default" + str;
}
}
|
e5f26f430a422a48086776a514acde06078143533efb79c286c8d247d906825c | Java | 147 | 4 | package io.ray.api.concurrencygroup;
/** The interface indicates concurrent executing in one thread pool. */
public interface ConcurrencyGroup {}
|
8f419215bfdd1167943fa0f9fcb5a9a9609f292c751a5d6741c1aefbc8127619 | Java | 151 | 4 | public class javaMovie {
static { System.load("/Users/justin/Desktop/mglMovie/libjavamovie.so"); }
public static native boolean initMovie();
}
|
a808444758e1b3107bbf91b2b1d6843e689e2a5b107f927a57abd0abb24edb79 | Java | 156 | 7 | package io.ray.api.runtime;
/** A factory that produces a RayRuntime instance. */
public interface RayRuntimeFactory {
RayRuntime createRayRuntime();
}
|
7cd6564a277a29f30cdca3038330ab79a1e0227927cdce76e3de8d6804b302ea | Java | 165 | 6 | package io.ray.api.function;
import java.io.Serializable;
/** Base interface of all Ray remote java functions. */
public interface RayFunc extends Serializable {}
|
d36ab1de727e4c902e85d06473c45c2af0c8b96173cdeb8bc96aab00f7879c16 | Java | 167 | 8 | package io.ray.api.exception;
public class CrossLanguageException extends RayException {
public CrossLanguageException(String message) {
super(message);
}
}
|
1af084e591be646b99680a9f6d9fe0422985c6b226c5c6093feca0312db0e653 | Java | 176 | 12 | package Orion_Stardist;
public class Point2D {
public final long x, y;
public Point2D(long x, long y) {
this.x = x;
this.y = y;
}
}
|
8b2546bca7da30729a3e4baf57f472a66d1a543b4f7ec7c1e2f6698c917a5a01 | Java | 188 | 12 | package Orion_Stardist;
public class Orion_Point2D {
public final long x, y;
public Orion_Point2D(long x, long y) {
this.x = x;
this.y = y;
}
}
|
4a9a41a1134a872827746ca2f234ee9bacd201b8c7e7b821b217c2125c6b0331 | Java | 200 | 13 | // Theo Walker
// Max Planck Florida Institute
// naroom@gmail.com
package cellMagicWand;
public class Pixel{
public int x,y;
public Pixel(int x, int y){
this.x=x;
this.y=y;
}
}
|
a89dcf9f6f62dfc72d1a21636f3502abbd05ac6d53582b4814151e66ba75fcf3 | Java | 201 | 8 | package io.ray.api;
/** Handle of a Cpp actor. */
public interface CppActorHandle extends BaseActorHandle, CppActorCall {
/** Returns the name of the Cpp actor class. */
String getClassName();
}
|
bb16840b2b712e53690b5597ec915dc2f832f53a56c472a97d5b1545ae3522fd | Java | 201 | 8 | package io.ray.api.function;
/**
* Interface of all Ray remote functions which have a return value.
*
* @param <R> Type of function return value
*/
public interface RayFuncR<R> extends RayFunc {}
|
a3b96042427442996b7a85bb17e23182cacff6098e2a42f4e08e25b4fc67998c | Java | 206 | 8 | package io.ray.serve.poll;
/** Listener of long poll. It notifies changed object to the specified key. */
@FunctionalInterface
public interface KeyListener {
void notifyChanged(Object updatedObject);
}
|
748f9ec2acc53a47f0e76a06225a31593acb5aa79f65c85406605833e536b765 | Java | 214 | 10 | package io.ray.serve.util;
import java.util.Collection;
public class CollectionUtil {
public static <E> boolean isEmpty(Collection<E> collection) {
return collection == null || collection.isEmpty();
}
}
|
cca34445c6b1a313e30773778a7b66f67260d2d0d8845264bbc5b9a9b41f8f2f | Java | 214 | 12 | package io.ray.serve.docdemo.test;
import io.ray.serve.docdemo.StrategyCalc;
import org.testng.annotations.Test;
public class StrategyCalcTest {
@Test
public void test() {
StrategyCalc.main(null);
}
}
|
3e4654e6477743f95a0e2cbacd3d8177388df3f23126cfff915414f845b386d6 | Java | 217 | 9 | package io.ray.serve.util;
import com.google.protobuf.InvalidProtocolBufferException;
@FunctionalInterface
public interface ProtobufBytesParser<T> {
T parse(byte[] bytes) throws InvalidProtocolBufferException;
}
|
6999ae6eceedebeb10aef6ea9f8ff8f86af4e01fd00c966c5568d28433c10d46 | Java | 226 | 11 | package io.ray.serve.controller;
import io.ray.serve.poll.LongPollRequest;
public interface ServeController {
byte[] getAllEndpoints();
byte[] listenForChange(LongPollRequest longPollRequest);
String getRootUrl();
}
|
b256d13619a40558e0e0c1f4e4c9fc2e3870f2e19c1f725192a52717a6d93ada | Java | 240 | 12 | package io.ray.api.exception;
public class RayException extends RuntimeException {
public RayException(String message) {
super(message);
}
public RayException(String message, Throwable cause) {
super(message, cause);
}
}
|
015dd89037bf8587685c44174d2012dcbe9b031dc0c7147be8e6901d900f08a2 | Java | 248 | 12 | import java.io.IOException;
public class Keytest {
public static boolean test(char key) {
try {
if (System.in.available()==0) return false;
return System.in.read()==(int)key;
} catch (IOException e) {
return false;
}
}
}
|
ef390615f4af293bfae49bbed97906c39216c924d1410601ea10d47e4a9669fe | Java | 251 | 10 | // generated automatically, do not modify.
package io.ray.api.function;
/** Functional interface for a remote function that has 0 parameter. */
@FunctionalInterface
public interface RayFunc0<R> extends RayFuncR<R> {
R apply() throws Exception;
}
|
3cb11644cecb407d5cdf069e3f12de8e484bbe65279a796542cc96692c2ec4af | Java | 255 | 10 | // generated automatically, do not modify.
package io.ray.api.function;
/** Functional interface for a remote function that has 0 parameter. */
@FunctionalInterface
public interface RayFuncVoid0 extends RayFuncVoid {
void apply() throws Exception;
}
|
32862118aae38d9de424652d9493a5306db95a5bcf16c800d608ea46733f90ed | Java | 257 | 12 | package io.ray.api.exception;
public class RuntimeEnvException extends RayException {
public RuntimeEnvException(String message) {
super(message);
}
public RuntimeEnvException(String message, Throwable cause) {
super(message, cause);
}
}
|
3df223edfadf3b705c3bfaee547a3aae8ceeb35e847356c36836078c72485bc1 | Java | 260 | 10 | // generated automatically, do not modify.
package io.ray.api.function;
/** Functional interface for a remote function that has 1 parameter. */
@FunctionalInterface
public interface RayFunc1<T0, R> extends RayFuncR<R> {
R apply(T0 t0) throws Exception;
}
|
043b2acb36a3d2434942749409ecd18336ab8a9709d30a6a6de7c76c00ecdf3d | Java | 264 | 10 | // generated automatically, do not modify.
package io.ray.api.function;
/** Functional interface for a remote function that has 1 parameter. */
@FunctionalInterface
public interface RayFuncVoid1<T0> extends RayFuncVoid {
void apply(T0 t0) throws Exception;
}
|
bdd44462c0030717e387f8e45e608e61100779b71c92fe5556c19d8cb77b3165 | Java | 266 | 9 | package io.ray.serve.util;
/** Ray Serve common log tool. */
public class MessageFormatter {
public static String format(String messagePattern, Object... args) {
return org.slf4j.helpers.MessageFormatter.arrayFormat(messagePattern, args).getMessage();
}
}
|
2d7852b21d1346e6e33244cb52d889cf1923938a83e5a2e01668fc26db173ed7 | Java | 272 | 10 | // generated automatically, do not modify.
package io.ray.api.function;
/** Functional interface for a remote function that has 2 parameters. */
@FunctionalInterface
public interface RayFunc2<T0, T1, R> extends RayFuncR<R> {
R apply(T0 t0, T1 t1) throws Exception;
}
|
3f3eb14c75c40bc0fc05d9cbbd48abfb19a0a2cafb8e6c68cdf0926d591b3bda | Java | 272 | 10 | package io.ray.serve.util;
import org.apache.commons.lang3.StringUtils;
public class CommonUtil {
public static String getDeploymentName(String deploymentDef) {
return StringUtils.substringAfterLast(StringUtils.substringAfterLast(deploymentDef, "."), "$");
}
}
|
3cd8251861f85004b7676b4da260b2e5b06eefab13d71858e4d376f9618138a2 | Java | 275 | 7 | package io.ray.api.parallelactor;
/**
* The `ParallelActor` is used for creating multiple execution instances in different threads, to
* execute the methods. The methods will be invoked on the instances in different threads.
*/
public class ParallelActor extends Call {}
|
1d4b2eedb36e4d127266c50f44ef0567f6dd4c464a96fd628e2212a6dbf53398 | Java | 276 | 13 | package io.ray.serve.util;
import org.testng.Assert;
import org.testng.annotations.Test;
public class LogUtilTest {
@Test
public void formatTest() {
String result = MessageFormatter.format("{},{},{}", "1", "2", "3");
Assert.assertEquals(result, "1,2,3");
}
}
|
8914bf34587cc0f8d0a36f6f97fc7c4131cffc9bb0ba99742e670c1d9449b347 | Java | 276 | 10 | // generated automatically, do not modify.
package io.ray.api.function;
/** Functional interface for a remote function that has 2 parameters. */
@FunctionalInterface
public interface RayFuncVoid2<T0, T1> extends RayFuncVoid {
void apply(T0 t0, T1 t1) throws Exception;
}
|
5d7a8668cfc6a97fa8dbee763548902ebda1288e51b4a05199acdd7b29f67d1e | Java | 279 | 11 | package io.ray.serve.docdemo;
// docs-strategy-start
public class StrategyOnRayServe {
public String calcIndicator(Long time, String bank, String indicator) {
// do bank data calculation
return bank + "-" + indicator + "-" + time; // Demo;
}
}
// docs-strategy-end
|
da42541588fffb0998f4d115543ca44d228739423d5e8f9b6222d578a65367fd | Java | 283 | 10 | // generated automatically, do not modify.
package io.ray.api.function;
/** Functional interface for a remote function that has 3 parameters. */
@FunctionalInterface
public interface RayFunc3<T0, T1, T2, R> extends RayFuncR<R> {
R apply(T0 t0, T1 t1, T2 t2) throws Exception;
}
|
b0685482766e0a26672e011ad5740bf30ffae73cf587e9e392d7030e20c36658 | Java | 284 | 13 | package io.ray.runtime.config;
public enum RunMode {
/**
* Ray is running in one single Java process, without Raylet backend, object store, and GCS. It's
* useful for debug.
*/
LOCAL,
/** Ray is running on one or more nodes, with multiple processes. */
CLUSTER,
}
|
a2dcb5eb8f5f8d5692141b30544226c919b09fb501032157ee181d44b3f7c71a | Java | 287 | 10 | // generated automatically, do not modify.
package io.ray.api.function;
/** Functional interface for a remote function that has 3 parameters. */
@FunctionalInterface
public interface RayFuncVoid3<T0, T1, T2> extends RayFuncVoid {
void apply(T0 t0, T1 t1, T2 t2) throws Exception;
}
|
7292b835cd7a1ea053695fb1f0532e0eb234a2883182dcc6c164fc149fa178f8 | Java | 292 | 11 | package io.ray.api;
/** Handle of a Python actor. */
public interface PyActorHandle extends BaseActorHandle, PyActorCall {
/** Returns the module name of the Python actor class. */
String getModuleName();
/** Returns the name of the Python actor class. */
String getClassName();
}
|
27cbd79f650082516b3c32d739520353c115319b39debc67e5247477958eac6c | Java | 294 | 10 | // generated automatically, do not modify.
package io.ray.api.function;
/** Functional interface for a remote function that has 4 parameters. */
@FunctionalInterface
public interface RayFunc4<T0, T1, T2, T3, R> extends RayFuncR<R> {
R apply(T0 t0, T1 t1, T2 t2, T3 t3) throws Exception;
}
|
ef117b5ec607d8ead44a2ac4712d864f484462023542206922ac6bce793d4bde | Java | 298 | 10 | // generated automatically, do not modify.
package io.ray.api.function;
/** Functional interface for a remote function that has 4 parameters. */
@FunctionalInterface
public interface RayFuncVoid4<T0, T1, T2, T3> extends RayFuncVoid {
void apply(T0 t0, T1 t1, T2 t2, T3 t3) throws Exception;
}
|
c177bd31ba54637ac78529e7cd11300f008a87a83a863bacede1229841af8bed | Java | 303 | 17 | package io.ray.test;
public class ExampleImpl implements ExampleInterface {
@Override
public String echo(String str) {
return str;
}
public String overloadedFunc(String str1) {
return str1;
}
public String overloadedFunc(String str1, String str2) {
return str1 + str2;
}
}
|
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