sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
ce80212257aa904515db5c27b615fa60c1b1ea1b7862044d45c1a0db17bdbd29 | Java | 2,182 | 55 | package org.janelia.colormipsearch.dataio.fs;
import java.io.File;
import java.io.IOException;
import java.io.UncheckedIOException;
import java.util.List;
import java.util.stream.Collectors;
import com.fasterxml.jackson.core.type.TypeReference;
import com.fasterxml.jackson.databind.ObjectMapper;
import org.janelia.c... |
829efa0acbe1cd683def96522b85b755474d4d90956992e714b241937eb8e187 | Java | 2,195 | 63 | package org.jeecg.modules.system.entity;
import java.io.Serializable;
import java.util.Date;
import com.baomidou.mybatisplus.annotation.IdType;
import com.baomidou.mybatisplus.annotation.TableId;
import com.baomidou.mybatisplus.annotation.TableName;
import com.baomidou.mybatisplus.annotation.TableField;
import io.swag... |
fd31eef86a87ce9c4ec6a14c8e8a16500c6707d576441a8e69a78ce2198c9f91 | Java | 2,226 | 51 | package org.janelia.colormipsearch.cmd;
import java.util.Arrays;
import com.beust.jcommander.JCommander;
import org.junit.Test;
import static org.junit.Assert.assertEquals;
public class CalculateGradientScoresCmdTest {
@Test
public void parseCmdArgs() {
CalculateGradientScoresCmd cmd = new Calcula... |
b9324fdae1b178571b7aa200d50e86b8434ef37939297606f9e35b7be1102810 | Java | 2,240 | 60 | package org.janelia.colormipsearch.api_v2.cdsearch;
import java.io.Serializable;
import java.util.Map;
import java.util.Set;
import java.util.function.Supplier;
import javax.annotation.Nonnull;
import org.janelia.colormipsearch.imageprocessing.ImageArray;
/**
* ColorMIPMaskCompare encapsulates a query image and it... |
b7ee5dc035d2a70c97be6f4387e197b684de2a85586cf16e9d5bdc313aa92fad | Java | 2,242 | 81 | package org.janelia.colormipsearch.cmd_v2;
import java.io.File;
import java.nio.file.Path;
import java.nio.file.Paths;
import java.util.Arrays;
import java.util.List;
import java.util.stream.Collectors;
import com.beust.jcommander.IStringConverter;
import org.apache.commons.lang3.RegExUtils;
import org.apache.common... |
32261ca890cc23a600684570610bfca65e8df77e2fd771725104487470821579 | Java | 2,297 | 82 | package org.janelia.colormipsearch.cmd;
import java.io.File;
import java.nio.file.Path;
import java.nio.file.Paths;
import java.util.Arrays;
import java.util.List;
import java.util.stream.Collectors;
import com.beust.jcommander.IStringConverter;
import org.apache.commons.lang3.RegExUtils;
import org.apache.commons.l... |
c44659fe47de00246c2e0d5bc623773cbb8c01910e2662b56019e399b39d84b6 | Java | 2,319 | 54 | package org.jeecg.modules.system.annotation;
import org.aspectj.lang.ProceedingJoinPoint;
import org.aspectj.lang.annotation.Around;
import org.aspectj.lang.annotation.Aspect;
import org.aspectj.lang.annotation.Pointcut;
import org.jeecg.common.api.vo.Result;
import org.springframework.beans.factory.annotation.Autowir... |
ba1677781f474895c93e1bfc95adeb96d8a122d4d146833a086e1abbc5914b60 | Java | 2,324 | 66 | package org.janelia.colormipsearch.cmd_v2;
import com.fasterxml.jackson.annotation.JsonClassDescription;
import com.fasterxml.jackson.annotation.JsonIgnore;
import com.fasterxml.jackson.annotation.JsonInclude;
import com.fasterxml.jackson.annotation.JsonProperty;
import org.apache.commons.lang3.StringUtils;
import or... |
6e20cf4c0916f7b4d74a833aee4a7b8e4d955b6a54ca4769c6c966e92c82884f | Java | 2,328 | 66 | package org.janelia.colormipsearch.cmd_v2;
import java.util.concurrent.ExecutionException;
import com.google.common.cache.CacheBuilder;
import com.google.common.cache.CacheLoader;
import com.google.common.cache.LoadingCache;
import org.janelia.colormipsearch.api_v2.Results;
import org.janelia.colormipsearch.api_v2.c... |
45aa3ac968483213a723705af8e9bb44143616386994ca5c924ac848b7b2382e | Java | 2,335 | 62 | package org.janelia.colormipsearch.cds;
import java.io.Serializable;
import java.util.Map;
import java.util.Set;
import java.util.function.Supplier;
import javax.annotation.Nonnull;
import org.janelia.colormipsearch.imageprocessing.ImageArray;
import org.janelia.colormipsearch.model.ComputeFileType;
/**
* ColorMIP... |
b204a127ef0fa0428e73867ec2f9795821492692815973e5b768357b165cd49e | Java | 2,336 | 47 | package org.janelia.colormipsearch.dao;
import java.util.Collection;
import java.util.List;
import java.util.Map;
import javax.annotation.Nullable;
import org.janelia.colormipsearch.model.PublishedLMImage;
public interface PublishedLMImageDao extends Dao<PublishedLMImage> {
/**
* @param alignmentSpace opti... |
22878ab5169b02873cb8bca43caebb4c765f88d70cc816684e8bdc1714e84989 | Java | 2,353 | 65 | package org.janelia.colormipsearch.dao.mongo.support;
import java.io.IOException;
import java.io.UncheckedIOException;
import com.fasterxml.jackson.annotation.JsonInclude;
import com.fasterxml.jackson.databind.DeserializationFeature;
import com.fasterxml.jackson.databind.ObjectMapper;
import com.fasterxml.jackson.dat... |
1f03c8be73efc31c6505cff7d172b4105fd9b732b433bb67047041355606cea7 | Java | 2,356 | 63 | package org.janelia.colormipsearch.api_v2.pppsearch;
import java.io.File;
import java.util.List;
import org.junit.Before;
import org.junit.Test;
import static org.junit.Assert.assertEquals;
import static org.junit.Assert.assertNotNull;
import static org.junit.Assert.assertTrue;
public class RawPPPMatchesReaderTest ... |
9a387d8df10b5fb7e46798d5ae0aac001dd7b890c430fac33eb57e454894df14 | Java | 2,380 | 78 | package org.janelia.colormipsearch.results;
import java.util.List;
import java.util.function.Function;
import org.apache.commons.lang3.builder.EqualsBuilder;
import org.apache.commons.lang3.builder.HashCodeBuilder;
public class GroupingCriteria<T, K> {
static class WrappedKey<K1> {
private final K1 key;... |
3471dac295fcd3f9eb86b6792f4da55ccf328d496b0337b072f1fb7848fdf0e5 | Java | 2,385 | 51 | package org.janelia.colormipsearch.api_v2.cdsearch;
import java.io.Serializable;
import java.util.LinkedHashMap;
import java.util.Map;
import org.janelia.colormipsearch.api_v2.cdmips.MIPImage;
/**
* Creates a color depth search for a given mask.
*/
public class ColorMIPSearch implements Serializable {
private... |
c1f1a4a408fb757e895d64c827e0112bd50ec1ae429720bc67eefe261f692536 | Java | 2,400 | 62 | package org.janelia.colormipsearch.dataio.fileutils;
import java.io.File;
import java.nio.file.Path;
import java.util.Collection;
import java.util.List;
import java.util.function.Function;
import com.fasterxml.jackson.databind.ObjectWriter;
import org.apache.commons.lang3.StringUtils;
import org.janelia.colormipsear... |
d7ca2fafa089f1ef72a49334956163c044aa696a195be7aa1ffc260e6bd66a25 | Java | 2,403 | 53 | package org.janelia.colormipsearch.dataio.db;
import java.util.Arrays;
import java.util.List;
import java.util.Map;
import java.util.function.Function;
import java.util.stream.Collectors;
import org.apache.commons.lang3.tuple.ImmutablePair;
import org.apache.commons.lang3.tuple.Pair;
import org.janelia.colormipsearch... |
103f7d7a9cc9e33b98bf8ae08c98ad35d471b2cb93c5443875b54a7983cfbed3 | Java | 2,417 | 68 | package org.janelia.colormipsearch.config;
import java.util.Properties;
import org.apache.commons.lang3.StringUtils;
public class ConfigImpl implements Config {
Properties properties = new Properties();
@Override
public String getStringPropertyValue(String name) {
return properties.getProperty(... |
5621450cca986bfdfd3df84060ff90066f126f8b36773c8d8c2bc06ab54aa165 | Java | 2,417 | 65 | package org.janelia.colormipsearch.dataio.fs;
import java.io.File;
import java.io.IOException;
import java.nio.file.Path;
import java.util.List;
import java.util.Map;
import java.util.Set;
import com.fasterxml.jackson.databind.ObjectMapper;
import org.apache.commons.lang3.StringUtils;
import org.janelia.colormipsear... |
b0d625a7a3098fdb4c00cbc5e672e523cf372322f748cf9e61486f3837e0a39d | Java | 2,433 | 98 | package org.janelia.colormipsearch.model;
import java.util.Collection;
import java.util.Date;
import java.util.HashSet;
import java.util.Set;
import com.fasterxml.jackson.annotation.JsonIgnore;
import com.fasterxml.jackson.annotation.JsonInclude;
import org.apache.commons.lang3.StringUtils;
import org.apache.commons... |
0769b01fddca8d444a044031baabf3b2a914ba79ad465e0cc5c0f951b9f43413 | Java | 2,455 | 66 | package org.janelia.colormipsearch.api_v2.cdmips;
import java.nio.file.Path;
import java.nio.file.Paths;
import java.util.Arrays;
import java.util.List;
import java.util.function.Function;
import java.util.stream.Collectors;
import java.util.stream.IntStream;
import java.util.stream.Stream;
import com.fasterxml.jacks... |
3435ce9e543bdd68c24bad22fbdf2ac4b82a042d590e11e21613ed30228a7cd3 | Java | 2,460 | 69 | package org.janelia.colormipsearch.dao;
import java.util.Collection;
import java.util.List;
import java.util.Map;
import java.util.Set;
import java.util.function.Function;
import org.janelia.colormipsearch.datarequests.PagedRequest;
import org.janelia.colormipsearch.datarequests.PagedResult;
import org.janelia.colorm... |
69df006828db5b3d940158fa6a928eac5fbb153043808fdc431a18dca67858a2 | Java | 2,475 | 105 | package de.biovoxxel.utilities;
import java.io.BufferedReader;
import java.io.File;
import java.io.FileReader;
import java.io.IOException;
import java.util.Vector;
import org.scijava.command.Command;
import org.scijava.plugin.Parameter;
import org.scijava.plugin.Plugin;
import ij.gui.PolygonRoi;
import ij.gui.Roi;
i... |
6e521a1f3579cc2766eacf4d9194eb54c6ac074b39fd33a1eb1a2775f9001f5d | Java | 2,488 | 66 | package org.janelia.colormipsearch.dataio.fs;
import java.io.File;
import java.io.IOException;
import java.nio.file.Path;
import java.util.List;
import java.util.Map;
import java.util.Set;
import com.fasterxml.jackson.databind.ObjectMapper;
import com.google.common.io.Files;
import org.apache.commons.lang3.StringUti... |
d070db8dfb1f614efb8fc12cd0e150c5679aef097ed20d89a6c80342d46f80bf | Java | 2,490 | 77 | package org.jeecg.modules.system.controller;
import com.alibaba.fastjson.JSONArray;
import com.alibaba.fastjson.JSONObject;
import com.baomidou.mybatisplus.core.conditions.query.LambdaQueryWrapper;
import io.swagger.annotations.Api;
import lombok.extern.slf4j.Slf4j;
import org.apache.shiro.authz.annotation.RequiresRol... |
20946ce27621ed421ca6e3d83ff7599da16316362da5190582ba0146e79f7196 | Java | 2,549 | 80 | package org.janelia.colormipsearch.dataio.fileutils;
import java.io.File;
import java.io.IOException;
import java.io.UncheckedIOException;
import java.nio.file.Files;
import java.nio.file.Path;
import java.nio.file.Paths;
import java.util.Collections;
import java.util.List;
import java.util.stream.Collectors;
import ... |
cfa7b7dd6f3618aa7f265236363663cd2294a5a64dd6b9cadc53c2177bf04995 | Java | 2,559 | 88 | package org.jeecg.modules.system.entity;
import com.baomidou.mybatisplus.annotation.IdType;
import com.baomidou.mybatisplus.annotation.TableId;
import com.baomidou.mybatisplus.annotation.TableName;
import com.fasterxml.jackson.annotation.JsonFormat;
import io.swagger.annotations.ApiModel;
import io.swagger.annotations... |
6e50373693f8c0b9e9690c2f77925104268d4f83e3a3aa4017474d9615058ff6 | Java | 2,563 | 103 | package org.janelia.colormipsearch.model;
import java.util.Collection;
import java.util.Date;
import java.util.HashSet;
import java.util.Set;
import com.fasterxml.jackson.annotation.JsonIgnore;
import com.fasterxml.jackson.annotation.JsonInclude;
import org.apache.commons.lang3.StringUtils;
import org.apache.commons... |
2336d94ec23c0db712740f3f57129a7e0cf8070d7f52959de0b1d9ff66d925b8 | Java | 2,570 | 110 | /**
* Class reprensting the model of data that are used by the Applet.
* This class handle the connection with the myProMS database to
* print correctly the informations on each gels
* @author Guillaume Arras (Guillaume.Arras@curie.fr)
* @version 14/05/2009
*/
public class ImageModel{
// Parameters
private Gel ... |
1e79e4262fa414872ec9b647c075e84659b94289361d2215336a730461e2f6a8 | Java | 2,585 | 83 | package org.janelia.colormipsearch.config;
import java.io.File;
import java.io.FileInputStream;
import java.io.IOException;
import java.io.InputStream;
import java.io.UncheckedIOException;
import java.util.Map;
import java.util.Properties;
import org.apache.commons.lang3.StringUtils;
import org.slf4j.Logger;
import o... |
aa25a92d81d5fa16182e286e816a06b6f9ce7b053f9c06f813c34cac19850408 | Java | 2,585 | 59 | package org.janelia.colormipsearch.dataio.db;
import java.util.Arrays;
import java.util.List;
import java.util.function.Function;
import java.util.stream.Collectors;
import org.apache.commons.lang3.tuple.Pair;
import org.janelia.colormipsearch.dao.NeuronMatchesDao;
import org.janelia.colormipsearch.dao.NeuronsMatchFi... |
6a768db55d46699980bccea3d43e457cfa9e717301f33825ec572f793e7a6fd4 | Java | 2,587 | 64 | package org.jeecg.modules.system.rule;
import com.alibaba.fastjson.JSONObject;
import com.baomidou.mybatisplus.core.conditions.query.LambdaQueryWrapper;
import org.jeecg.common.handler.IFillRuleHandler;
import org.jeecg.common.util.SpringContextUtils;
import org.jeecg.common.util.YouBianCodeUtil;
import org.jeecg.comm... |
4bf6b73b02ac0dcf8401f1a6df5d01c751f35b082cefa95fea2b0fc4cd2acfa5 | Java | 2,612 | 86 | package org.janelia.colormipsearch.results;
import java.util.List;
import java.util.function.Function;
import org.apache.commons.lang3.builder.EqualsBuilder;
import org.apache.commons.lang3.builder.HashCodeBuilder;
import org.apache.commons.lang3.builder.ToStringBuilder;
public class GroupingCriteria<T, K> {
st... |
3098490e28026e19f1ec805c8cd64f6d137526f43ebe3de6df86e08c7371d557 | Java | 2,613 | 90 | package org.jeecg.modules.system.entity;
import com.baomidou.mybatisplus.annotation.IdType;
import com.baomidou.mybatisplus.annotation.TableId;
import com.baomidou.mybatisplus.annotation.TableName;
import com.fasterxml.jackson.annotation.JsonFormat;
import io.swagger.annotations.ApiModel;
import io.swagger.annotations... |
911e5e5646513a350edbd224cb8c9a10dac96faf9452ade942bd84b981df2c1c | Java | 2,621 | 86 | package org.jeecg.modules.system.entity;
import com.baomidou.mybatisplus.annotation.IdType;
import com.baomidou.mybatisplus.annotation.TableId;
import com.baomidou.mybatisplus.annotation.TableName;
import com.fasterxml.jackson.annotation.JsonFormat;
import io.swagger.annotations.ApiModel;
import io.swagger.annotations... |
9d9eee913c1284a661cc258958f56920dd6143b7f9e7b08cd7b949cb0e5d4e25 | Java | 2,626 | 75 | package org.jeecg.modules.system.entity;
import java.io.Serializable;
import java.util.Date;
import com.baomidou.mybatisplus.annotation.IdType;
import com.baomidou.mybatisplus.annotation.TableId;
import com.baomidou.mybatisplus.annotation.TableName;
import com.baomidou.mybatisplus.annotation.TableField;
import io.swag... |
9372445c4a5c07337e32d69d0e7ecb65fadf265591625a1f263c5865d167dd0d | Java | 2,629 | 86 | package org.janelia.colormipsearch.cds;
import java.io.Serializable;
import java.util.LinkedHashMap;
import java.util.Map;
import org.apache.commons.lang3.StringUtils;
public class ColorDepthSearchParams implements Serializable {
private final Map<String, Object> params = new LinkedHashMap<>();
public Strin... |
16f3eebc7e68f8e606c338d7b311486024181c8fac4a2b551c07840863fe6849 | Java | 2,630 | 91 | package org.janelia.colormipsearch.cmd.jacsdata;
import java.util.List;
import java.util.Map;
import java.util.stream.Collectors;
import com.fasterxml.jackson.annotation.JsonProperty;
import org.apache.commons.lang3.StringUtils;
import org.apache.commons.lang3.builder.ToStringBuilder;
/**
* This is the representat... |
8a00bdb543345d328bd1e6eda088da7de2a780b32b1cd54b112c4d9fe6f8a92f | Java | 2,638 | 75 | package org.jeecg.modules.federalml.controller;
import java.util.Set;
import org.jeecg.common.api.vo.Result;
import org.jeecg.modules.federalml.service.IFlReadyStatusChkService;
import org.springframework.beans.factory.annotation.Autowired;
import org.springframework.beans.factory.annotation.Value;
import org.springf... |
1cc6e9ca700e02ba6c77edc1923559edb99440cb45212d9fd4992f1351d5a203 | Java | 2,641 | 86 | package org.janelia.colormipsearch.api_v2.cdsearch;
import java.io.Serializable;
import java.util.LinkedHashMap;
import java.util.Map;
import org.apache.commons.lang3.StringUtils;
public class ColorDepthSearchParams implements Serializable {
private final Map<String, Object> params = new LinkedHashMap<>();
... |
61ad6671b8e7660282534b5edb9392fd4d23638c883f90ab0f65ab5c4c2ff436 | Java | 2,658 | 111 | package org.jeecg.modules.system.service;
import com.baomidou.mybatisplus.extension.service.IService;
import org.jeecg.modules.system.entity.SysDepart;
import org.jeecg.modules.system.model.DepartIdModel;
import org.jeecg.modules.system.model.SysDepartTreeModel;
import java.util.List;
/**
* <p>
* 部门表 服务实现类
* <p>
... |
4086bb403f3f11a3dff76481483d26bf2ab3ddbdb89b660eb11a7f1a911ad8b7 | Java | 2,683 | 93 | package org.janelia.colormipsearch.cmd.jacsdata;
import java.util.List;
import java.util.Map;
import java.util.stream.Collectors;
import com.fasterxml.jackson.annotation.JsonProperty;
import org.apache.commons.lang3.StringUtils;
import org.apache.commons.lang3.builder.ToStringBuilder;
/**
* This is the representat... |
7b6dc40c74861bf75380cc75ba45cb476ea4e2546ac00f965905ed43caf6f967 | Java | 2,708 | 120 | package fiji.plugin.DOM;
import java.io.File;
import java.io.FileNotFoundException;
import java.util.Scanner;
import ij.IJ;
import ij.ImagePlus;
import ij.measure.ResultsTable;
import ij.plugin.PlugIn;
import ij.plugin.filter.Analyzer;
public class LoadLargeRT implements PlugIn {
protected ImagePlus image;
publi... |
db9abef57448d0a1f2c4bbb88c5f40819bfe5a0098678aff521dc7843a8bbc93 | Java | 2,722 | 84 | package org.janelia.colormipsearch.config;
import java.io.File;
import java.io.FileInputStream;
import java.io.IOException;
import java.io.InputStream;
import java.io.UncheckedIOException;
import java.nio.file.Files;
import java.util.Map;
import java.util.Properties;
import org.apache.commons.lang3.StringUtils;
impor... |
25ba82fa555c2af5a36993e8a7d534e2d5f710eb72348f0298f858615fbc178e | Java | 2,732 | 104 | package org.janelia.colormipsearch.api_v2.cdmips;
import org.apache.commons.lang3.builder.EqualsBuilder;
import org.apache.commons.lang3.builder.HashCodeBuilder;
public class MIPIdentifier {
private final String id;
private final String publishedName;
private final String libraryName;
private final St... |
48d4c844cdf4f5056e78c4833029968110e73d00644243c49b529d7a18f1dd54 | Java | 2,745 | 74 | package org.jeecg.modules.system.entity;
import java.io.Serializable;
import java.util.Date;
import com.baomidou.mybatisplus.annotation.IdType;
import com.baomidou.mybatisplus.annotation.TableId;
import com.baomidou.mybatisplus.annotation.TableName;
import lombok.Data;
import com.fasterxml.jackson.annotation.JsonForma... |
69ab0e52afc63a9a5e565dba8efc5b837159545e32281380cc887d1ec4d37b65 | Java | 2,761 | 72 | package org.jeecg.modules.message.job;
import java.util.List;
import org.jeecg.common.util.DateUtils;
import org.jeecg.modules.message.entity.SysMessage;
import org.jeecg.modules.message.handle.ISendMsgHandle;
import org.jeecg.modules.message.handle.enums.SendMsgStatusEnum;
import org.jeecg.modules.message.handle.enu... |
6cc20b5626ccd5732679af68e51fc52aed1b89e7d71a161278d930ee9a562ca0 | Java | 2,799 | 76 | package org.jeecg.modules.system.service.impl;
import com.baomidou.mybatisplus.core.conditions.query.QueryWrapper;
import org.jeecg.common.constant.CacheConstant;
import org.jeecg.common.system.vo.LoginUser;
import org.jeecg.modules.system.entity.SysUser;
import org.jeecg.modules.system.entity.SysUserRole;
import org... |
be9dbcc94d172b6aee419e04ca3a2ba408a606885f21533267f5d1350a3ea40a | Java | 2,810 | 62 | package org.janelia.colormipsearch.api_v2.cdsearch;
import java.util.LinkedHashSet;
import java.util.Map;
import java.util.Set;
import java.util.function.Supplier;
import javax.annotation.Nonnull;
import org.janelia.colormipsearch.imageprocessing.ImageArray;
public class PixelMatchWithNegativeScoreColorDepthSearchA... |
1f2426c71fa037894901b7f29d7eb6488d65e084e2012e71c01a89fa442110a1 | Java | 2,818 | 79 | package org.jeecg;
import java.util.ArrayList;
import java.util.List;
import org.jeecgframework.codegenerate.generate.impl.CodeGenerateOneToMany;
import org.jeecgframework.codegenerate.generate.pojo.onetomany.MainTableVo;
import org.jeecgframework.codegenerate.generate.pojo.onetomany.SubTableVo;
/**
* 代码生成器入口【一对多】 ... |
3b4f8f34038486521e19c0185bb4ddff3c7113bcf2270d2022c81f8b4749dc31 | Java | 2,842 | 80 | package org.jeecg.modules.message.util;
import freemarker.template.Configuration;
import freemarker.template.Template;
import freemarker.template.TemplateException;
import org.jeecg.modules.message.entity.SysMessage;
import org.jeecg.modules.message.entity.SysMessageTemplate;
import org.jeecg.modules.message.handle.en... |
25f368efcdb630581c3725fcc6452db65762334998fd1277377cadb6cb6a0a52 | Java | 2,852 | 96 | package org.jeecg.modules.system.util;
import org.jeecg.common.util.oConvertUtils;
import org.jeecg.modules.system.entity.SysPermission;
import java.util.List;
/**
* @Author: scott
* @Date: 2019-04-03
*/
public class PermissionDataUtil {
/**
* 智能处理错误数据，简化用户失误操作
*
* @param permission
*/
... |
099c8322c7e93e8484f87e5e2f3713167bae979d4d1ff8cc99b1bf98756b5c95 | Java | 2,873 | 106 | package com.unity.oculus;
import android.app.Activity;
import android.view.Surface;
import android.view.SurfaceView;
import android.util.Log;
import android.view.ViewGroup;
import android.content.pm.ApplicationInfo;
import android.content.pm.PackageManager;
import android.os.Bundle;
import android.os.Build;
... |
9bd5cb971ce4c67a9c87452047553778b90c00e7abe9ca1e2a286511e745d386 | Java | 2,931 | 75 | package org.janelia.colormipsearch.dataio;
import java.util.Collection;
import java.util.List;
import org.janelia.colormipsearch.datarequests.ScoresFilter;
import org.janelia.colormipsearch.datarequests.SortCriteria;
import org.janelia.colormipsearch.model.AbstractMatchEntity;
import org.janelia.colormipsearch.model.... |
7537bab31bf4d663cf1796dfda2e62ae8efbe4c4f9b4597d67e9da4a30a1cf86 | Java | 2,962 | 104 | package jaolho.data.lma;
public class ArrayConverter {
public static class SeparatedData {
public double[] yDataPoints;
public double[][] xDataPoints;
}
public static double[][] asDoubleArray(float[][] a) {
double[][] result = new double[a.length][];
for (int i = 0; i < a.length; i++) {
//a[i].clas... |
edf198e46a353331a44b3970ef273fe27ac4538c35e1e5f1597c665774a63ae3 | Java | 3,003 | 106 | package org.janelia.colormipsearch.cmd;
import java.io.File;
import java.nio.file.Path;
import java.nio.file.Paths;
import java.util.Arrays;
import java.util.List;
import java.util.stream.Collectors;
import com.beust.jcommander.IStringConverter;
import org.apache.commons.lang3.RegExUtils;
import org.apache.commons.l... |
7b7fc75a6ddf78a495eea00772cac01ccdd4be964078bcf75f23a103eb97482f | Java | 3,010 | 115 | package fiji.plugin.DOM;
import java.io.File;
import java.io.FileWriter;
import java.io.IOException;
import java.text.DecimalFormat;
import java.text.DecimalFormatSymbols;
import ij.IJ;
import ij.ImagePlus;
import ij.io.SaveDialog;
import ij.plugin.PlugIn;
public class Export_MTrackJ implements PlugIn {
SMLAnal... |
ce365b15a6bb488d7b45e1b89b007b68113c4258cd46a94611a37825978b8de4 | Java | 3,018 | 66 | package org.janelia.colormipsearch.dao;
import java.util.List;
import java.util.function.Function;
import org.apache.commons.lang3.tuple.Pair;
import org.janelia.colormipsearch.datarequests.PagedRequest;
import org.janelia.colormipsearch.datarequests.PagedResult;
import org.janelia.colormipsearch.model.AbstractMatchE... |
e233fa10e991e505d289e6a0823696845a2f53497f13b71eb143db01dd48e681 | Java | 3,020 | 97 | package org.jeecg.modules.oss.controller;
import javax.servlet.http.HttpServletRequest;
import com.baomidou.mybatisplus.core.conditions.query.QueryWrapper;
import com.baomidou.mybatisplus.core.metadata.IPage;
import com.baomidou.mybatisplus.extension.plugins.pagination.Page;
import lombok.extern.slf4j.Slf4j;
import o... |
aa9e5a61097a28d4bcad74899a50ae9c1d42d11ff03ba0db7978191407cecdcb | Java | 3,049 | 78 | package org.janelia.colormipsearch.cmd;
import java.util.ArrayList;
import java.util.Collections;
import java.util.List;
import com.beust.jcommander.Parameter;
import com.beust.jcommander.Parameters;
import com.google.common.collect.ImmutableMap;
import org.janelia.colormipsearch.dao.AppendFieldValueHandler;
import ... |
f4354b7198397bd078f7053c5f25e15e9c54d8b4bbd2bd9f9434dc8a9c276c8f | Java | 3,066 | 116 | package org.janelia.colormipsearch.imageprocessing;
import java.util.HashMap;
import java.util.Map;
import java.util.function.BiFunction;
/**
* Lazy image type implementation.
*/
public class LImageImpl implements LImage {
private final ImageType imageType;
private final int width;
private final int he... |
e2e53841d5f34f94c6f858cf3334dc05f394a48e11c4522425654d8b732866b0 | Java | 3,116 | 79 | package org.janelia.colormipsearch.pppsearch;
import java.io.File;
import java.util.List;
import java.util.stream.Collectors;
import com.fasterxml.jackson.databind.DeserializationFeature;
import com.fasterxml.jackson.databind.ObjectMapper;
import org.janelia.colormipsearch.model.EMNeuronEntity;
import org.janelia.co... |
7961c5e0914d4d275f77a62379ebbeb7e53ca08e7ed35f7802e6a8265ae92829 | Java | 3,146 | 87 | package org.jeecg.modules.system.service.impl;
import com.baomidou.mybatisplus.core.conditions.query.QueryWrapper;
import org.jeecg.common.util.IPUtils;
import org.jeecg.common.util.SpringContextUtils;
import org.jeecg.common.util.oConvertUtils;
import org.jeecg.modules.system.entity.SysDepartRolePermission;
import or... |
a12126bcae3f176880054eceef7722e4d89c923a63e71e884c4c10685389e4a7 | Java | 3,148 | 128 | package org.jeecg.modules.system.service;
import java.util.List;
import java.util.Map;
import org.jeecg.common.system.vo.DictModel;
import org.jeecg.common.system.vo.DictQuery;
import org.jeecg.modules.system.entity.SysDict;
import com.baomidou.mybatisplus.extension.service.IService;
import org.jeecg.modules.system.e... |
9ad77a32da886388cc60c5b01dd56e525cd2f1cbe767a6abbdb91bc08cb92ace | Java | 3,179 | 67 | package org.janelia.colormipsearch.model;
import org.apache.commons.lang3.StringUtils;
public enum FileType {
store, // special type for holding the image store value;
CDM, // The CDM of the image.
CDMThumbnail, // The thumbnail sized version of the ColorDepthMip, if available.
CDMInput, // CDM-only. ... |
6ccbd11352a2d6e11e0c41524b716b547c4477490fb0e2a4b799a1201e9a493b | Java | 3,206 | 139 | package fiji.plugin.DOM;
import ij.IJ;
import ij.ImagePlus;
import ij.gui.Overlay;
import ij.plugin.PlugIn;
public class Link_Particles implements PlugIn {
ImagePlus imp;
SMLDialog dlg = new SMLDialog();
SMLAnalysis sml = new SMLAnalysis();
SMLLinker smlLink;
Overlay ovTracks;
public void run(String arg) {... |
e4cdb2e3f4cb76e887f3a5f424f1decc05a9b0f18f40cbe8da0732a3799fb648 | Java | 3,211 | 98 | package fiji.plugin.DOM;
import java.io.File;
import java.io.FileWriter;
import java.io.IOException;
import java.text.DecimalFormat;
import java.text.DecimalFormatSymbols;
import ij.IJ;
import ij.io.SaveDialog;
import ij.plugin.PlugIn;
/** Export to Fairy Dust 3D webgl viewer **/
public class Export_FD implements Plu... |
3561de374015c88dbdaa7fc4b4330c660ccb50837481dede8f990c8b62ddf2bb | Java | 3,212 | 84 | package org.janelia.colormipsearch.cmd_v2;
import java.util.Collections;
import java.util.List;
import com.beust.jcommander.IStringConverter;
import com.beust.jcommander.IValueValidator;
import com.beust.jcommander.ParameterException;
import com.google.common.base.Splitter;
import org.apache.commons.lang3.StringUtil... |
848c81e4a6040088687be9b6646494542dd04ebc22334d44ee5f9e36867f1749 | Java | 3,223 | 107 | package org.janelia.colormipsearch.model;
import java.util.HashMap;
import java.util.Map;
import org.janelia.colormipsearch.dto.LMNeuronMetadata;
import org.janelia.colormipsearch.model.annotations.DoNotPersist;
public class LMNeuronEntity extends AbstractNeuronEntity {
// LM internal line name - this could be ... |
45b0bb677f6c753079908de39f1d80bd1cb8c478e4ea3deb6155a601f3c36266 | Java | 3,241 | 113 | package org.jeecg.modules.system.util;
import javax.crypto.Cipher;
import javax.crypto.spec.IvParameterSpec;
import javax.crypto.spec.SecretKeySpec;
import org.apache.commons.codec.binary.Base64;
/**
* @author 作者 ：Mall
*/
public class AesEncode {
// 使用AES-128-CBC加密模式，key需要为16位,key和iv可以相同！
private static Str... |
368ef7326bd8caf1cf0bc6574f5ca92e00ed4c361c046f00f96736246593d691 | Java | 3,276 | 120 | package org.jeecg.utils;
/**
* @Description: 邀请码生成
* @author: zhaoxh
* @date: 2021年07月07日 16:22
*/
import java.util.Arrays;
public class InviteCode {
/**
* 随机字符串
*/
private static final char[] CHARS = new char[] { 'F', 'L', 'G', 'W', '5', 'X', 'C', '3', '9', 'Z', 'M', '6', '7',
'Y',... |
a8824f814ae821955482240c4f8ef4f411a0e9db486c6803afde8fa16aa2ea16 | Java | 3,313 | 120 | package org.janelia.colormipsearch.cmd_v2;
import org.apache.commons.lang3.builder.ToStringBuilder;
import org.janelia.colormipsearch.api_v2.cdsearch.ColorMIPSearchMatchMetadata;
public class LightColorMIPSearchMatch {
private String sourceId;
private String sourceImageName;
private String id;
privat... |
77287ecff51a238b82f57059d0819c51e4bb415d37efc2891251ac21b35801d6 | Java | 3,334 | 94 | package org.janelia.colormipsearch.dao;
import java.math.BigInteger;
import java.net.InetAddress;
import java.net.UnknownHostException;
import java.util.ArrayList;
import java.util.List;
public class TimebasedIdGenerator implements IdGenerator {
private static final Long CURRENT_TIME_OFFSET = 921700000000L;
... |
38cbcf19a3528540d533092215f301639c7c9ca7e972d6607cd61e68cf0b7241 | Java | 3,338 | 86 | package org.jeecg.modules.ngalain.controller;
import java.util.ArrayList;
import java.util.List;
import java.util.Map;
import javax.servlet.http.HttpServletRequest;
import org.apache.shiro.SecurityUtils;
import org.jeecg.common.api.vo.Result;
import org.jeecg.common.system.vo.DictModel;
import org.jeecg.common.syste... |
6dbe05f70e18292bbd42e27492b26511d59141c73cd895a2361970ffa1ef61d0 | Java | 3,338 | 103 | package org.jeecg.modules.cas.util;
import java.io.BufferedReader;
import java.io.IOException;
import java.io.InputStreamReader;
import java.security.cert.X509Certificate;
import javax.net.ssl.SSLContext;
import javax.net.ssl.TrustManager;
import javax.net.ssl.X509TrustManager;
import org.apache.http.HttpResponse;
i... |
6b59f2478697dc2c92273e69faef3e8044c54d02014f3a1b37ca88323dbfe862 | Java | 3,351 | 111 | package org.jeecg.modules.system.entity;
import com.baomidou.mybatisplus.annotation.IdType;
import com.baomidou.mybatisplus.annotation.TableId;
import com.baomidou.mybatisplus.annotation.TableName;
import com.fasterxml.jackson.annotation.JsonFormat;
import io.swagger.annotations.ApiModel;
import io.swagger.annotations... |
75ac9287b0f19656101145565103c7430e41cf603e470d6768db50bbb4700a5c | Java | 3,364 | 135 | package org.janelia.colormipsearch.model;
import java.util.Date;
import java.util.HashMap;
import java.util.Map;
import com.fasterxml.jackson.annotation.JsonProperty;
import com.fasterxml.jackson.annotation.JsonTypeInfo;
import org.apache.commons.lang3.StringUtils;
import org.janelia.colormipsearch.model.annotations... |
b61bf26988f26dfb2d06409a101f369f9900cf7d0bc0743fb0182357d7b953d1 | Java | 3,392 | 115 | package org.jeecg.modules.system.util;
import cn.hutool.core.util.StrUtil;
import com.google.common.base.Preconditions;
public class PwdCheckUtil {
//定义特殊字符
public static String SPECIAL_CHAR = "!\"#$%&'()*+,-./:;<=>?@[\\]^_`{|}~";
/**
* @brief 检测密码中字符长度
* @param[in] password 密码字... |
29616de6d13d87bbc95b3e214531ed22914461d2d8b7cf52daa5795c8f6079e6 | Java | 3,394 | 182 | package org.jeecg.modules.system.entity;
import java.io.Serializable;
import java.util.Date;
import com.baomidou.mybatisplus.annotation.IdType;
import com.baomidou.mybatisplus.annotation.TableField;
import com.baomidou.mybatisplus.annotation.TableId;
import lombok.Data;
import lombok.EqualsAndHashCode;
import lombok.e... |
49436e393ae25285ed5bc5548fa143c934bef60fed61bcc1c4d078fbb80dc23f | Java | 3,403 | 94 | package org.jeecg.modules.system.controller;
import java.util.ArrayList;
import java.util.List;
import javax.servlet.http.HttpServletRequest;
import org.jeecg.common.api.vo.Result;
import org.jeecg.common.system.query.QueryGenerator;
import org.jeecg.common.util.oConvertUtils;
import org.jeecg.modules.system.entity.... |
f9f535073c0d30c67a4cfe5d1298bd420b1555686b428b79dbc662f6f66f0042 | Java | 3,405 | 112 | package org.janelia.colormipsearch.dao;
import java.util.Collection;
import java.util.HashSet;
import java.util.List;
import java.util.Set;
import org.apache.commons.collections4.CollectionUtils;
import org.apache.commons.lang3.StringUtils;
import org.janelia.colormipsearch.datarequests.ScoresFilter;
import org.janel... |
e02e1c2497ead3b77125933f3fdbb1262474db002bfddab7bf2c02653ea3c388 | Java | 3,410 | 80 | package org.janelia.colormipsearch.cmd.dataexport;
import java.nio.file.Path;
import java.util.concurrent.Executor;
import org.janelia.colormipsearch.cmd.jacsdata.CachedDataHelper;
import org.janelia.colormipsearch.cmd.jacsdata.ColorDepthMIP;
import org.janelia.colormipsearch.dataio.DataSourceParam;
import org.janeli... |
09b66c2c7801c3fab937932eba19463ab8a722594f1eb1f72e0b1c4216b0b391 | Java | 3,443 | 102 | package org.jeecg.modules.system.service.impl;
import cn.hutool.core.util.ObjectUtil;
import com.alibaba.fastjson.JSON;
import com.alibaba.fastjson.JSONObject;
import com.baomidou.mybatisplus.core.conditions.query.LambdaQueryWrapper;
import com.baomidou.mybatisplus.extension.service.impl.ServiceImpl;
import lombok.ext... |
6bcdf28d63f27a4abf0270d844e624664599023260094f1ea2650653f4a1cda2 | Java | 3,457 | 139 | package org.janelia.colormipsearch.model;
import java.util.Date;
import java.util.HashMap;
import java.util.Map;
import com.fasterxml.jackson.annotation.JsonProperty;
import com.fasterxml.jackson.annotation.JsonTypeInfo;
import org.apache.commons.lang3.StringUtils;
import org.janelia.colormipsearch.model.annotations... |
413b96688691bddf77f5387153af697c6ec815a0d73e5084f52bfb294cf5c87d | Java | 3,463 | 76 | package org.janelia.colormipsearch.dao.mongo;
import java.util.ArrayList;
import java.util.List;
import org.janelia.colormipsearch.dao.NeuronMatchesDao;
import org.janelia.colormipsearch.model.AbstractNeuronEntity;
import org.janelia.colormipsearch.model.EMNeuronEntity;
import org.janelia.colormipsearch.model.LMNeuro... |
53857c10db8df9d1759f576b91aeeabb985044e47cb532930ec0f210a106ca6d | Java | 3,473 | 120 | package org.jeecg.modules.system.entity;
import com.baomidou.mybatisplus.annotation.IdType;
import com.baomidou.mybatisplus.annotation.TableId;
import com.baomidou.mybatisplus.annotation.TableName;
import com.fasterxml.jackson.annotation.JsonFormat;
import io.swagger.annotations.ApiModel;
import io.swagger.annotations... |
6addcd9df52372208f116f2a653806f577e6fbfb07620f3315422f4ccc58a3b3 | Java | 3,495 | 85 | package org.janelia.colormipsearch.dao;
import java.util.List;
import java.util.Map;
import java.util.function.Function;
import org.apache.commons.lang3.tuple.Pair;
import org.janelia.colormipsearch.datarequests.PagedRequest;
import org.janelia.colormipsearch.datarequests.PagedResult;
import org.janelia.colormipsearc... |
ed9eb4b9eebe30439314ac8bed74837414e81cc6ccf9352c92c37923b8189cf0 | Java | 3,516 | 139 | package org.janelia.colormipsearch.api_v2.pppsearch;
import com.fasterxml.jackson.annotation.JsonProperty;
import org.apache.commons.lang3.builder.ToStringBuilder;
class RawSkeletonMatches {
@JsonProperty("skel_ids")
private String bestSkeletonIds;
@JsonProperty("nblast_scores")
private String bestNB... |
660fba35794d28ffaae3d01be6e562864242b50d0d1f5cdca517e536dd1ab450 | Java | 3,518 | 93 | package org.jeecg.modules.system.service.impl;
import com.baomidou.mybatisplus.core.conditions.query.QueryWrapper;
import org.jeecg.common.util.oConvertUtils;
import org.jeecg.modules.system.entity.SysDepartRole;
import org.jeecg.modules.system.entity.SysDepartRoleUser;
import org.jeecg.modules.system.mapper.SysDepart... |
6ecb14a48dc1b727025a64c9167c5bb7cf367f60964fad16509a0289d3cedb07 | Java | 3,522 | 139 | package org.janelia.colormipsearch.ppp;
import com.fasterxml.jackson.annotation.JsonProperty;
import org.apache.commons.lang3.builder.ToStringBuilder;
class RawSkeletonMatches {
@JsonProperty("skel_ids")
private String bestSkeletonIds;
@JsonProperty("nblast_scores")
private String bestNBlastScores;
... |
e961f2255712bb8375be994276d7bc78f86914e8a733099e672eeae81eedf256 | Java | 3,556 | 123 | package org.janelia.colormipsearch.model;
import java.nio.file.Path;
import java.nio.file.Paths;
import com.fasterxml.jackson.annotation.JsonIgnore;
import com.fasterxml.jackson.databind.annotation.JsonDeserialize;
import com.fasterxml.jackson.databind.annotation.JsonSerialize;
import org.apache.commons.lang3.String... |
de926d075cfbaba64ee1d36638d809d829a921e03a41fd7ff2bc04eb69bae7b6 | Java | 3,613 | 174 | package org.jeecg.modules.system.model;
import org.jeecg.modules.system.entity.SysPermission;
import java.io.Serializable;
import java.util.ArrayList;
import java.util.HashMap;
import java.util.List;
import java.util.Map;
/**
* 树形列表用到
*/
public class TreeModel implements Serializable {
private static final lo... |
2a7ef3885ae0b9094bd54c4d8e6b43601d7114c156245a5a843160101b774f4f | Java | 3,617 | 93 | package org.jeecg.modules.system.service.impl;
import com.alibaba.fastjson.JSONObject;
import com.baomidou.mybatisplus.extension.service.impl.ServiceImpl;
import org.apache.poi.ss.formula.functions.T;
import org.jeecg.common.api.vo.Result;
import org.jeecg.common.constant.CommonConstant;
import org.jeecg.common.util.I... |
f4beac6a0ae1f6c2409e564612375a646b6335eade9484d76cedcc487259b262 | Java | 3,617 | 90 | package org.janelia.colormipsearch.cmd.dataexport;
import java.net.URI;
import java.nio.file.Path;
import java.nio.file.Paths;
import java.util.Map;
import org.apache.commons.lang3.StringUtils;
import org.apache.commons.lang3.builder.ToStringBuilder;
import org.janelia.colormipsearch.dto.AbstractNeuronMetadata;
impor... |
28f663da0263902799372a400f61c2b8ccdf832d1f4ee328f119948798139957 | Java | 3,628 | 82 | package org.janelia.colormipsearch.cmd.dataexport;
import java.nio.file.Path;
import java.util.concurrent.Executor;
import org.janelia.colormipsearch.cmd.jacsdata.CachedDataHelper;
import org.janelia.colormipsearch.cmd.jacsdata.ColorDepthMIP;
import org.janelia.colormipsearch.dataio.DataSourceParam;
import org.janeli... |
c5e3a72df75876e7e728239704d5c56220e588fb1f89aec26faee27da3fb0b08 | Java | 3,634 | 54 | package org.janelia.colormipsearch.model;
import java.util.Arrays;
import java.util.List;
import org.apache.commons.lang3.tuple.ImmutablePair;
import org.apache.commons.lang3.tuple.Pair;
import org.janelia.colormipsearch.dto.AbstractNeuronMetadata;
import org.janelia.colormipsearch.dto.PPPMatchedTarget;
import org.ju... |
202e92ab7809003945e1143b7b6e0a449beacf2dd2195fffc7f82cf37c7bfa34 | Java | 3,649 | 90 | package org.janelia.colormipsearch.cmd;
import java.util.Collections;
import java.util.List;
import com.beust.jcommander.IStringConverter;
import com.beust.jcommander.IValueValidator;
import com.beust.jcommander.ParameterException;
import com.google.common.base.Splitter;
import org.apache.commons.lang3.StringUtils;
... |
713b40b543d8d80c1eda15dc491fb891004bd41eb040f81573b593101d586e7a | Java | 3,653 | 93 | package org.janelia.colormipsearch.cmd_v2;
import java.util.List;
import com.beust.jcommander.JCommander;
import com.beust.jcommander.Parameter;
import org.apache.commons.lang3.StringUtils;
/**
* Perform color depth mask search on a Spark cluster.
*
* @author <a href="mailto:rokickik@janelia.hhmi.org">Konrad Rok... |
cc90dd6d9b0fa5b0da1cdc92a03b4cc470c9dc2c413297d4640744148f6fc885 | Java | 3,656 | 121 | package org.jeecg.modules.system.service.impl;
import java.util.*;
import org.jeecg.common.constant.CacheConstant;
import org.jeecg.common.util.IPUtils;
import org.jeecg.common.util.SpringContextUtils;
import org.jeecg.common.util.oConvertUtils;
import org.jeecg.modules.system.entity.SysRolePermission;
import org.jee... |
22de336e68c31f5c7e7f4bd9a22a5fa4abbf2bfc15fff6b28090ce2c0afba67f | Java | 3,670 | 85 | package org.janelia.colormipsearch.dataio.fs;
import java.nio.file.Path;
import java.util.Collections;
import java.util.Comparator;
import java.util.List;
import java.util.function.Function;
import com.fasterxml.jackson.databind.ObjectWriter;
import org.apache.commons.lang3.tuple.Pair;
import org.janelia.colormipsea... |
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