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define([
"base/js/dialog",
"./common",
"./state"
],
function (dialog, common, state) {
function writeMetaData(data) {
var notebook = IPython.notebook
if (typeof notebook.metadata.openbis_connections === 'undefined') {
notebook.metadata.openbis_connections = {}
}
if (typeof notebook.metadata.openbis_connections[data.url] === 'undefined') {
notebook.metadata.openbis_connections[data.url] = {}
}
// store metadata about the downloaded files into the notebook-metadata
if (data.permId) {
notebook.metadata.openbis_connections[data.url][data.permId] = {
"permId": data.permId,
"path": data.path,
"dataStore": data.dataStore,
"location": data.location,
"size": data.size,
"status": data.statusText
}
}
}
function show_datasets_table(data, datasets_table) {
var table = document.createElement("TABLE")
table.className = "table-bordered table-striped table-condensed text-nowrap"
var thead = table.createTHead()
var t_row = thead.insertRow()
var titles = ['', 'permId', 'Type', 'Experiment', 'Registration Date', 'Status', 'Size']
titles.forEach(function (title) {
t_row.insertCell().textContent = title
})
var tbody = table.createTBody()
for (dataSet of data.dataSets) {
var permId = document.createElement("INPUT")
permId.type = "checkbox"
permId.name = "permId"
permId.value = dataSet.permId
var row = tbody.insertRow()
row.insertCell().appendChild(permId)
row.insertCell().textContent = dataSet.permId
row.insertCell().textContent = dataSet.type
row.insertCell().textContent = dataSet.experiment
row.insertCell().textContent = dataSet.registrationDate
row.insertCell().textContent = dataSet.status
row.insertCell().textContent = dataSet.size
}
while (datasets_table.firstChild) {
datasets_table.removeChild(datasets_table.firstChild);
}
datasets_table.appendChild(table)
}
return {
help: 'Download openBIS datasets to your local harddrive',
icon: 'fa-download',
help_index: '',
handler: function (env) {
conn_table = document.createElement("DIV")
conn_table.id = "openbis_connections"
var showDataSets = document.createElement("DIV")
var title = document.createElement("STRONG")
title.textContent = "Sample identifier / permId: "
showDataSets.appendChild(title)
showDataSets.style.marginTop = '10px'
var sampleIdentifier = document.createElement("INPUT")
sampleIdentifier.type = "text"
sampleIdentifier.name = "sampleIdentifier"
sampleIdentifier.size = 40
sampleIdentifier.placeholder = "sample identifier or permId"
sampleIdentifier.value = ''
var datasets_table = document.createElement("DIV")
datasets_table.id = "dataset_table"
datasets_table.className = "output output_scroll"
datasets_table.style.maxHeight = "10em"
var show_datasets_btn = document.createElement("BUTTON")
show_datasets_btn.className = "btn-info btn-xs"
show_datasets_btn.textContent = "show datasets"
show_datasets_btn.onclick = function () {
var selected_conn = state.connection.name
if (!selected_conn) {
alert('Please choose a connection')
return false
}
connection_name = state.connection.name
currentConnection = connection_name
currentSampleIdentifier = sampleIdentifier.value
if (!currentSampleIdentifier) {
alert('Please specify a sample identifier/permId')
return false
}
var url = env.notebook.base_url + 'openbis/sample/' + connection_name + '/' + encodeURIComponent(currentSampleIdentifier)
fetch(url)
.then(function (response) {
if (response.ok) {
response.json()
.then(function (data) {
show_datasets_table(data, datasets_table)
})
} else {
response.json()
.then(function (error) {
console.log(error.reason)
alert("Error: " + error.reason)
})
}
})
.catch(function (error) {
console.error('A serious network problem occured:', error)
})
}
showDataSets.appendChild(sampleIdentifier)
showDataSets.appendChild(show_datasets_btn)
showDataSets.appendChild(datasets_table)
// dataSetPermId only
var dataset_direct = document.createElement("P")
dataset_direct.style.marginTop = '10px'
dataset_direct.innerHTML = '<strong>enter DataSet permId directly: </strong>'
//var dataset = $('<p>')
// .css('margin-top', '10px')
// .append($('<b>').text('... or enter DataSet permId directly: '))
var datasetPermId = document.createElement("INPUT")
datasetPermId.type = "text"
datasetPermId.name = "datasetPermId"
datasetPermId.size = "40"
datasetPermId.placeholder = "dataSet permId"
dataset_direct.appendChild(datasetPermId)
var downloadPath = document.createElement("INPUT")
downloadPath.type = "text"
downloadPath.name = "downloadPath"
downloadPath.size = "90"
downloadPath.value = ''
var path = document.createElement("DIV")
path.innerHTML = "<strong>download data to path: </strong>"
path.appendChild(downloadPath)
var download_dialog_box = document.createElement("DIV")
download_dialog_box.appendChild(conn_table)
download_dialog_box.appendChild(showDataSets)
download_dialog_box.appendChild(dataset_direct)
download_dialog_box.appendChild(path)
function downloadDataset(connection_name, selectedPermIds, downloadPath) {
for (permId of selectedPermIds) {
var downloadUrl = env.notebook.base_url + 'openbis/dataset/' +
connection_name + '/' + permId + '/' + encodeURIComponent(downloadPath)
fetch(downloadUrl)
.then(function (response) {
if (response.ok) {
response.json()
.then(function (data) {
common.createFeedback('success', data.statusText)
// successful download:
// write statusText from returned data to notebooks metadata
writeMetaData(data)
// keep current download path for later use
currentDownloadPath = downloadPath
})
} else {
response.json()
.then(function (error) {
console.log(error.reason)
alert("Error: " + error.reason)
})
}
})
.catch(function (error) {
console.error('A serious network problem occured:', error)
})
}
}
function onDownloadClick() {
var selected_conn = state.connection.name
if (!selected_conn) {
alert('please choose a connection')
return false
}
var selectedPermIds = []
for (row of document.querySelectorAll('input[name=permId]:checked')) {
selectedPermIds.push(row.value)
}
if (datasetPermId.value) {
selectedPermIds.push(datasetPermId.value)
}
if (!selectedPermIds) {
alert('please select a dataset or provide a permId')
return false
}
if (!downloadPath.value) {
alert('Please specify where you would like to download your files!')
return false
}
downloadDataset(selected_conn, selectedPermIds, downloadPath.value)
}
dialog.modal({
body: download_dialog_box,
title: 'Download openBIS DataSets',
buttons: {
'Cancel': {},
'Download': {
class: 'btn-primary btn-large',
click: onDownloadClick,
}
},
notebook: env.notebook,
keyboard_manager: env.notebook.keyboard_manager
})
}
}
}
)