cbare

##==========================================================
## Tables Pipeline Example
## 
## An example of using Synapse tables to store raw data and
## intermediate steps to extract features for downstream
## analysis
##==========================================================
import synapseclient
from synapseclient import Activity
from synapseclient import Entity, Project, Folder, File

cbare

##Background Why is this an important question and why is it interesting for the participants?

##Registration

${{jointeam?teamId={team[id]}&showProfileForm=true&isMemberMessage=You have successfully joined the {name}}}

##Data description What data types and how many samples are provided. The Data Description page has more details.

cbare

import os
import synapseclient

syn = synapseclient.Synapse()
syn.login() # insert credentials here, unless you have a cached API key.

##  ADChallenge_WorkingGroup (syn2343636) Files	» ADNI » Genetics » GWAS
folder_id = 'syn2362101'

## Get all children of the parent folder

cbare

############################################################
## Find lost stuff in a git repository                    ##
##                                                        ##
## run in the root of your git repo                       ##
## Usage: python grep_git_objects.py <target>             ##
############################################################
import os
import sys
import subprocess

cbare

import synapseclient
from synapseclient import File, Project, Folder

syn = synapseclient.login()

## get latest 100 revisions of a wikipedia article
url = "http://en.wikipedia.org/w/api.php?action=query&titles=Crimea&prop=revisions&rvprop=ids|timestamp|flags|content&rvlimit=100&format=json"

response = requests.get(url)
crimea = response.json()

cbare

###########################################################
## 
## runAttractorInCRCSC
##
## A sample data analysis for use with the Mad Scientist
## Stu demo of Synapse:
##   https://www.synapse.org/#!Help:Collaboratorium
###########################################################
"""
Perform Step 5 of the Mad Scientist Stu Synapse Tutorial.

cbare

################################################################
## get submissions and metadata for Synthetic challenge 4
################################################################

import synapseclient
from synapseclient import Activity
from synapseclient import Entity, Project, Folder, File
from synapseclient import Evaluation, Submission, SubmissionStatus
import os
import pandas as pd

cbare

import synapseclient
syn = synapseclient.Synapse()
syn.login()

# ID for challenge participants team
team_id = ??
results = list(syn._GET_paginated('/teamMembers/{id}'.format(id=team_id)))

print "Number of participants:", len(results)

cbare

from itertools import izip
import argparse
import os
import re
import sys
import synapseclient
import synapseclient.utils as utils
from synapseclient import Project, File, Folder, Activity
from synapseclient import Schema, Column, Table, Row, RowSet, as_table_columns
import pandas as pd

cbare

import synapseclient
from synapseclient.exceptions import SynapseError


team_id = "3325290"
approved_participant_ids = ["377358", "3321663"]

syn = synapseclient.Synapse()

## log in using cached API key.