public DiseaseHPOSummaryBarModel GetDiseaseHPOSummaryBar(string name, string hideHpoStr, int nlpMinCount)
{
name = name.Trim();
var summaryBar = new DiseaseHPOSummaryBarModel();
var result = new DiseaseHPOSummaryModel();
result.HPOList = new List <DiseaseHPOSummaryHPOModel>();
var fileName = _config.GetValue <string>("GlobalSetting:HPOExcelPath");
FileInfo file = new FileInfo(fileName);
using (ExcelPackage package = new ExcelPackage(file))
{
var mapping = new DiseaseHPOSummaryLibraryMappingModel();
//获取当前疾病和知识库的关系
var librarySheet = package.Workbook.Worksheets[2];
int row = librarySheet.Dimension.Rows;
for (int i = 1; i <= row; i++)
{
if (librarySheet.Cells[i, 1].Value.ToString().Trim() == name)
{
result.DiseaseName = name;
result.CasesCount = Convert.ToInt32(librarySheet.Cells[i, 3].Value.ToString());
mapping.ChineseName = name;
mapping.CasesCount = librarySheet.Cells[i, 3].Value.ToString();
mapping.EramId = librarySheet.Cells[i, 4].Value.ToString();
mapping.OMIMId = librarySheet.Cells[i, 5].Value.ToString();
mapping.ORPHAId = librarySheet.Cells[i, 6].Value.ToString();
break;
}
}
//获取疾病所有case 和hpo
if (!_config.GetValue <bool>("GlobalSetting:UseCache"))
{
var workSheet = package.Workbook.Worksheets[1];
row = workSheet.Dimension.Rows;
for (int i = 2; i <= row; i++)
{
if (workSheet.Cells[i, 2].Value != null && workSheet.Cells[i, 2].Value.ToString().Trim() == name)
{
result.DiseaseName = name;
result.CasesCount++;
//NLP hpo
if (workSheet.Cells[i, 3].Value != null)
{
var arr = workSheet.Cells[i, 3].Value.ToString().Split(",");
foreach (var r in arr)
{
var hpo = result.HPOList.FirstOrDefault(x => x.HPOId == r);
if (hpo != null)
{
hpo.NlpCount++;
}
else
{
result.HPOList.Add(new DiseaseHPOSummaryHPOModel {
HPOId = r, NlpCount = 1
});
}
}
}
//检验 hpo
if (workSheet.Cells[i, 4].Value != null)
{
var arr = workSheet.Cells[i, 4].Value.ToString().Split(",");
foreach (var r in arr)
{
var hpo = result.HPOList.FirstOrDefault(x => x.HPOId == r);
if (hpo != null)
{
hpo.ExamCount++;
}
else
{
result.HPOList.Add(new DiseaseHPOSummaryHPOModel {
HPOId = r, ExamCount = 1
});
}
}
}
}
}
}
//获取各个知识库
var summarySheet = package.Workbook.Worksheets[3];
row = summarySheet.Dimension.Rows;
for (int i = 1; i <= row; i++)
{
if (summarySheet.Cells[i, 1].Value != null && summarySheet.Cells[i, 4].Value != null)
{
var hpoId = summarySheet.Cells[i, 4].Value.ToString();
var source = summarySheet.Cells[i, 1].Value.ToString().ToUpper();
hpoId = string.IsNullOrEmpty(hpoId) ? "" : hpoId.Trim();
var hpo = result.HPOList.FirstOrDefault(x => x.HPOId == hpoId);
if (_config.GetValue <bool>("GlobalSetting:UseCache") && summarySheet.Cells[i, 2].Value != null)
{
var diseaseName = summarySheet.Cells[i, 2].Value.ToString();
if (source == "EMR" && diseaseName == name)
{
var type = summarySheet.Cells[i, 5].Value.ToString();
var count = Convert.ToInt32(summarySheet.Cells[i, 6].Value.ToString());
if (hpo != null)
{
if (type == "NLP")
{
hpo.NlpCount = count;
}
if (type == "LAB")
{
hpo.ExamCount = count;
}
}
else
{
hpo = new DiseaseHPOSummaryHPOModel();
hpo.HPOId = hpoId;
if (type == "NLP")
{
hpo.NlpCount = count;
}
if (type == "LAB")
{
hpo.ExamCount = count;
}
result.HPOList.Add(hpo);
}
}
}
if (summarySheet.Cells[i, 3].Value != null)
{
var linkedId = summarySheet.Cells[i, 3].Value.ToString();
if (source == "ERAM" && linkedId == mapping.EramId)
{
if (hpo != null)
{
hpo.EramCount = -1;
}
else
{
result.HPOList.Add(new DiseaseHPOSummaryHPOModel {
HPOId = hpoId, EramCount = -1
});
}
}
if (source == "OMIM" && linkedId == mapping.OMIMId)
{
if (hpo != null)
{
hpo.OMIMCount = -1;
}
else
{
result.HPOList.Add(new DiseaseHPOSummaryHPOModel {
HPOId = hpoId, OMIMCount = -1
});
}
}
if (source == "ORPHA" && linkedId == mapping.ORPHAId)
{
if (hpo != null)
{
hpo.ORPHACount = -1;
}
else
{
result.HPOList.Add(new DiseaseHPOSummaryHPOModel {
HPOId = hpoId, ORPHACount = -1
});
}
}
}
}
}
}
result.HPOList = result.HPOList.OrderByDescending(x => x.NlpCount).ThenByDescending(x => x.ExamCount).ToList();
var chpoList = from T1 in _localMemoryCache.GetCHPO2020StandardList()
join T2 in result.HPOList.Select(x => x.HPOId) on T1.HpoId equals T2
select new CHPO2020Model {
NameChinese = T1.NameChinese, HpoId = T1.HpoId, NameEnglish = T1.NameEnglish
};
summaryBar.HPOItem = new List <CHPO2020Model>();
var maxCount = result.HPOList.First().NlpCount;
var ratio = maxCount / 15;
foreach (var hpo in result.HPOList)
{
if (!string.IsNullOrWhiteSpace(hideHpoStr) && hideHpoStr.ToLower().Contains(hpo.HPOId.ToLower()))
{
continue;
}
if (hpo.NlpCount < nlpMinCount && hpo.ExamCount == 0 && hpo.EramCount == 0 && hpo.OMIMCount == 0 && hpo.ORPHACount == 0)
{
continue;
}
var chpo = chpoList.FirstOrDefault(x => x.HpoId == hpo.HPOId);
if (chpo != null)
{
if (string.IsNullOrWhiteSpace(chpo.NameChinese))
{
chpo.NameChinese = hpo.HPOId;
}
else
{
if (chpo.NameChinese.Length > 50)
{
chpo.NameChinese = chpo.NameChinese.Substring(0, 50) + "...";
}
chpo.NameChinese = chpo.NameChinese + ":" + hpo.HPOId;
}
if (string.IsNullOrWhiteSpace(chpo.NameEnglish))
{
chpo.NameEnglish = hpo.HPOId;
}
else
{
if (chpo.NameEnglish.Length > 70)
{
chpo.NameEnglish = chpo.NameEnglish.Substring(0, 70) + "...";
}
chpo.NameEnglish = chpo.NameEnglish + ":" + hpo.HPOId;
}
}
else
{
chpo = new CHPO2020Model {
HpoId = hpo.HPOId, NameChinese = hpo.HPOId, NameEnglish = hpo.HPOId
};
}
if (ratio > 0)
{
if (hpo.EramCount == -1)
{
hpo.EramCount = hpo.EramCount * ratio;
}
if (hpo.OMIMCount == -1)
{
hpo.OMIMCount = hpo.OMIMCount * ratio;
}
if (hpo.ORPHACount == -1)
{
hpo.ORPHACount = hpo.ORPHACount * ratio;
}
}
hpo.Display = true;
summaryBar.HPOItem.Add(chpo);
}
summaryBar.CasesCount = result.CasesCount;
summaryBar.SeriesDataModel = new List <SeriesData>();
result.HPOList = result.HPOList.Where(x => x.Display == true).ToList();
summaryBar.SeriesDataModel.Add(new SeriesData {
Name = "NLP命中", Value = result.HPOList.Select(x => x.NlpCount).ToList()
});
summaryBar.SeriesDataModel.Add(new SeriesData {
Name = "检验命中", Value = result.HPOList.Select(x => x.ExamCount).ToList()
});
summaryBar.SeriesDataModel.Add(new SeriesData {
Name = "eRAM命中", Value = result.HPOList.Select(x => x.EramCount).ToList()
});
summaryBar.SeriesDataModel.Add(new SeriesData {
Name = "OMIM命中", Value = result.HPOList.Select(x => x.OMIMCount).ToList()
});
summaryBar.SeriesDataModel.Add(new SeriesData {
Name = "Orphanet命中", Value = result.HPOList.Select(x => x.ORPHACount).ToList()
});
return(summaryBar);
}
/// <summary>
/// patientEmpiId can be empiid or cardNo
/// </summary>
/// <param name="nlpEngine"></param>
/// <param name="patientEMRDetail"></param>
/// <param name="patientEmpiId"></param>
/// <returns></returns>
public List <HPODataModel> GetPatientHPOResult(string nlpEngine, string patientEMRDetail, string patientVisitIds)
{
var hpoList = new List <HPODataModel>();
//首先获取检验数据HPO
if (!string.IsNullOrWhiteSpace(patientVisitIds))
{
hpoList.AddRange(_rdrDataRepository.GetPatientExamDataResult(patientVisitIds));
}
if (!string.IsNullOrWhiteSpace(patientEMRDetail))
{
//如果API 启用，就调用API 否则取数据库跑出来的结果
if (_config.GetValue <bool>("NLPAddress:HPOApiEnable"))
{
try
{
var clientName = "HPOStringMatchHost";
var api = _config.GetValue <string>("NLPAddress:HPOStringMatchApi");
if (nlpEngine.Equals("Spacy"))
{
clientName = "HPOSpacyMatchHost";
api = _config.GetValue <string>("NLPAddress:HPOSpacyMatchApi");
}
var client = _clientFactory.CreateClient(clientName);
string boundary = DateTime.Now.Ticks.ToString("X");
var formData = new MultipartFormDataContent(boundary);
patientEMRDetail = "{\"text\":\"" + patientEMRDetail + "\"}";
_logger.LogError($"GetPatientHPOResult request，HPO engine:{nlpEngine},api:{api} 请求数据：" + patientEMRDetail);
formData.Add(new StringContent(patientEMRDetail), "texts");
var response = client.PostAsync(api, formData);
var result = response.Result.Content.ReadAsStringAsync().Result.ToString();
_logger.LogError($"GetPatientHPOResult result，HPO engine:{nlpEngine},api:{api} 返回数据：" + result);
var hpoEngineList = JsonConvert.DeserializeObject <List <HPOAPIEngineResultModel> >(result);
var subList = new List <HPODataModel>();
foreach (var r in hpoEngineList)
{
foreach (var hpo in r.Similarchpoid)
{
var data = new HPODataModel();
if (nlpEngine.Equals("Spacy"))
{
data.Name = r.Emrword + ":" + r.Similarchpoterm;
}
else
{
data.Name = r.Emrword;
}
data.Positivie = r.Positivie;
data.StartIndex = r.Start;
data.EndIndex = r.End;
data.HPOId = hpo;
data.TermSource = r.TermSource == null ? "" : string.Join(",", r.TermSource);
data.Editable = true;
data.IndexList = new List <HPOMatchIndexModel>();
data.IndexList.Add(new HPOMatchIndexModel {
StartIndex = data.StartIndex, EndIndex = data.EndIndex
});
var item = subList.FirstOrDefault(x => x.HPOId == data.HPOId && x.Name == data.Name && x.Positivie == data.Positivie);
if (item != null)
{
item.IndexList.AddRange(data.IndexList);
}
else
{
subList.Add(data);
}
}
}
var chpoList = from T1 in _localMemoryCache.GetCHPO2020StandardList()
join T2 in subList.Select(x => x.HPOId) on T1.HpoId equals T2
select new CHPO2020Model {
NameChinese = T1.NameChinese, HpoId = T1.HpoId, NameEnglish = T1.NameEnglish
};
foreach (var r in subList)
{
r.IndexList = r.IndexList.OrderBy(x => x.StartIndex).ToList();
var chpo2020Data = chpoList.FirstOrDefault(x => x.HpoId == r.HPOId);
if (chpo2020Data != null)
{
r.CHPOName = chpo2020Data.NameChinese;
r.NameEnglish = chpo2020Data.NameEnglish;
}
}
hpoList.AddRange(subList);
}
catch (Exception ex)
{
_logger.LogError("NLPSystemRepository GetPatientHPOResult报错：" + ex.ToString());
}
}
else
{
hpoList.Add(new HPODataModel {
Name = "僵硬", NameEnglish = "Rigors", HPOId = "HP:0025145", Editable = true, CHPOName = "运动迟缓", TermSource = "hpo,omaha"
});
hpoList[1].IndexList = new List <HPOMatchIndexModel>();
hpoList[1].IndexList.Add(new HPOMatchIndexModel {
StartIndex = 23, EndIndex = 25
});
hpoList[1].IndexList.Add(new HPOMatchIndexModel {
StartIndex = 113, EndIndex = 115
});
hpoList[1].IndexList.Add(new HPOMatchIndexModel {
StartIndex = 722, EndIndex = 724
});
hpoList.Add(new HPODataModel {
Name = "抖动", NameEnglish = "Tremor", HPOId = "HP:0001337", Editable = true, CHPOName = "震颤", TermSource = "umls"
});
hpoList[2].IndexList = new List <HPOMatchIndexModel>();
hpoList[2].IndexList.Add(new HPOMatchIndexModel {
StartIndex = 20, EndIndex = 22
});
hpoList.Add(new HPODataModel {
Name = "运动迟缓", NameEnglish = "Bradykinesia", HPOId = "HP:0002067", Editable = true, TermSource = "umls,hpo,omaha", CHPOName = "运动迟缓"
});
hpoList[3].IndexList = new List <HPOMatchIndexModel>();
hpoList[3].IndexList.Add(new HPOMatchIndexModel {
StartIndex = 160, EndIndex = 163
});
hpoList.Add(new HPODataModel {
Name = "构音障碍", NameEnglish = "Dysarthria", HPOId = "HP:0001260", Editable = true, Positivie = 0, TermSource = "umls,hpo,omaha", CHPOName = "构音障碍"
});
hpoList[4].IndexList = new List <HPOMatchIndexModel>();
hpoList[4].IndexList.Add(new HPOMatchIndexModel {
StartIndex = 334, EndIndex = 338
});
}
}
return(hpoList);
}
