Yatel
Installation Guide
Ubuntu/Debian/Mint
Windows or other xnix
From repo
Install as develop
Command Line Interface
Commands
Quick Start
What is Yatel?
Case study (example)
Loading problem into Yatel
Yatel Objects
Classes
Stats
Transformation Functions
Calculation Functions
A More Advanced Example
The
Query By JSON
(QBJ) Language
Features
Syntax: Query and Query returns
Functions
QBJ Console
The Resolution Process
Yatel ETL Framework
Creation of a full ETL
Life cycle of a ETL
Running a ETL in a cronjob
API Reference:
yatel
package
Subpackages
Submodules
yatel.cli module
yatel.client module
yatel.db module
yatel.dom module
yatel.etl module
yatel.server module
yatel.stats module
yatel.typeconv module
Module contents
Yatel
Docs
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Index
A
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B
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C
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D
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E
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F
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G
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H
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I
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J
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K
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L
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M
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N
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P
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Q
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R
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S
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T
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U
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V
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W
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X
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Y
A
add_element() (yatel.db.YatelNetwork method)
add_elements() (yatel.db.YatelNetwork method)
add_nw() (yatel.server.YatelHttpServer method)
amax() (in module yatel.qbj.functions)
(in module yatel.stats)
amin() (in module yatel.qbj.functions)
(in module yatel.stats)
average() (in module yatel.qbj.functions)
(in module yatel.stats)
B
Backup (class in yatel.cli)
BaseETL (class in yatel.etl)
BaseParser (class in yatel.yio.core)
BaseWeight (class in yatel.weight.core)
C
capitalize() (in module yatel.qbj.functions)
command() (in module yatel.cli)
CONF_SCHEMA (in module yatel.server)
confirm_changes() (yatel.db.YatelNetwork method)
Copy (class in yatel.cli)
copy() (in module yatel.db)
count() (in module yatel.qbj.functions)
CreateConf (class in yatel.cli)
CreateETL (class in yatel.cli)
CreateWSGI (class in yatel.cli)
D
DamerauLevenshtein (class in yatel.weight.levenshtein)
Database (class in yatel.cli)
default() (yatel.qbj.shell.QBJShell method)
DEFINITIONS (in module yatel.qbj.schema)
Describe (class in yatel.cli)
describe() (in module yatel.qbj.functions)
(yatel.db.YatelNetwork method)
DescribeETL (class in yatel.cli)
Descriptor (class in yatel.dom)
div() (in module yatel.qbj.functions)
do_EOF() (yatel.qbj.shell.QBJShell method)
do_exec() (yatel.qbj.shell.QBJShell method)
do_exit() (yatel.qbj.shell.QBJShell method)
do_fhelp() (yatel.qbj.shell.QBJShell method)
do_help() (yatel.qbj.shell.QBJShell method)
do_indent() (yatel.qbj.shell.QBJShell method)
Dump (class in yatel.cli)
dump() (in module yatel.yio)
(yatel.yio.core.BaseParser method)
(yatel.yio.yjf.JSONParser method)
(yatel.yio.yxf.XMLParser method)
dumps() (yatel.yio.core.BaseParser method)
E
Edge (class in yatel.dom)
edge_gen() (yatel.etl.BaseETL method)
EDGES (in module yatel.db)
edges() (in module yatel.qbj.functions)
(yatel.db.YatelNetwork method)
edges_by_environment() (in module yatel.qbj.functions)
(yatel.db.YatelNetwork method)
edges_by_haplotype() (in module yatel.qbj.functions)
(yatel.db.YatelNetwork method)
emptyline() (yatel.qbj.shell.QBJShell method)
endswith() (in module yatel.qbj.functions)
ENGINE_URIS (in module yatel.db)
ENGINE_VARS (in module yatel.db)
ENGINES (in module yatel.db)
env2weightarray() (in module yatel.qbj.functions)
(in module yatel.stats)
Environment (class in yatel.dom)
environments() (in module yatel.qbj.functions)
(yatel.db.YatelNetwork method)
error (yatel.client.QBJResponse attribute)
error_msg (yatel.client.QBJResponse attribute)
etlcls_from_module() (in module yatel.etl)
Euclidean (class in yatel.weight.euclidean)
execute() (in module yatel.etl)
(yatel.client.QBJClient method)
(yatel.db.YatelNetwork method)
(yatel.qbj.core.QBJEngine method)
exists() (in module yatel.db)
F
Fact (class in yatel.dom)
fact_gen() (yatel.etl.BaseETL method)
FACTS (in module yatel.db)
facts() (in module yatel.qbj.functions)
(yatel.db.YatelNetwork method)
facts_by_environment() (in module yatel.qbj.functions)
(yatel.db.YatelNetwork method)
facts_by_haplotype() (in module yatel.qbj.functions)
(yatel.db.YatelNetwork method)
file_exts() (yatel.yio.core.BaseParser class method)
(yatel.yio.yjf.JSONParser class method)
(yatel.yio.yxf.XMLParser class method)
find() (in module yatel.qbj.functions)
floor() (in module yatel.qbj.functions)
from_dict() (in module yatel.server)
G
get_conf_template() (in module yatel.server)
get_template() (in module yatel.etl)
get_wsgi_template() (in module yatel.server)
H
Hamming (class in yatel.weight.hamming)
hap_in_env_coords() (in module yatel.cluster.kmeans)
Haplotype (class in yatel.dom)
haplotype_by_id() (in module yatel.qbj.functions)
(yatel.db.YatelNetwork method)
haplotype_gen() (yatel.etl.BaseETL method)
HAPLOTYPES (in module yatel.db)
haplotypes() (in module yatel.qbj.functions)
(yatel.db.YatelNetwork method)
haplotypes_by_environment() (in module yatel.qbj.functions)
(yatel.db.YatelNetwork method)
HAPLOTYPES_CACHE (yatel.etl.BaseETL attribute)
HASHED_TYPES (in module yatel.typeconv)
help() (in module yatel.qbj.functions)
I
id (yatel.client.QBJResponse attribute)
index() (in module yatel.qbj.functions)
isalnum() (in module yatel.qbj.functions)
isalpha() (in module yatel.qbj.functions)
isdigit() (in module yatel.qbj.functions)
islower() (in module yatel.qbj.functions)
isspace() (in module yatel.qbj.functions)
istitle() (in module yatel.qbj.functions)
isupper() (in module yatel.qbj.functions)
J
join() (in module yatel.qbj.functions)
json (yatel.client.QBJResponse attribute)
JSONParser (class in yatel.yio.yjf)
K
kmeans() (in module yatel.cluster.kmeans)
(in module yatel.qbj.functions)
kurtosis() (in module yatel.qbj.functions)
(in module yatel.stats)
L
Levenshtein (class in yatel.weight.levenshtein)
List (class in yatel.cli)
LITERAL_TYPE (in module yatel.typeconv)
Load (class in yatel.cli)
load() (in module yatel.yio)
(yatel.yio.core.BaseParser method)
(yatel.yio.yjf.JSONParser method)
(yatel.yio.yxf.XMLParser method)
loads() (yatel.yio.core.BaseParser method)
lower() (in module yatel.qbj.functions)
lstrip() (in module yatel.qbj.functions)
M
max() (in module yatel.qbj.functions)
(in module yatel.stats)
median() (in module yatel.qbj.functions)
(in module yatel.stats)
min() (in module yatel.qbj.functions)
(in module yatel.stats)
minus() (in module yatel.qbj.functions)
mode (yatel.db.YatelNetwork attribute)
mode() (in module yatel.qbj.functions)
(in module yatel.stats)
MODE_APPEND (in module yatel.db)
MODE_READ (in module yatel.db)
MODE_WRITE (in module yatel.db)
MODES (in module yatel.db)
N
names() (yatel.weight.core.BaseWeight class method)
(yatel.weight.euclidean.Euclidean class method)
(yatel.weight.hamming.Hamming class method)
(yatel.weight.levenshtein.DamerauLevenshtein class method)
(yatel.weight.levenshtein.Levenshtein class method)
NAMES_TO_TYPES (in module yatel.typeconv)
now() (in module yatel.qbj.functions)
np2py() (in module yatel.typeconv)
nw() (yatel.server.YatelHttpServer method)
nw2obs() (in module yatel.cluster.kmeans)
P
parse() (in module yatel.typeconv)
parse_response() (yatel.client.QBJClient method)
parse_uri() (in module yatel.db)
PARSERS (in module yatel.yio)
percentile() (in module yatel.qbj.functions)
(in module yatel.stats)
ping() (in module yatel.qbj.functions)
pow() (in module yatel.qbj.functions)
PyShell (class in yatel.cli)
PYTHON_TYPES (in module yatel.db)
Q
qbj() (yatel.server.YatelHttpServer method)
QBJ_SCHEMA (in module yatel.qbj.schema)
QBJClient (class in yatel.client)
QBJClientError
QBJEngine (class in yatel.qbj.core)
QBJResolver (class in yatel.qbj.core)
QBJResponse (class in yatel.client)
QBJShell (class in yatel.cli)
(class in yatel.qbj.shell)
qfilter() (in module yatel.db)
R
range() (in module yatel.qbj.functions)
(in module yatel.stats)
replace() (in module yatel.qbj.functions)
resolve() (yatel.qbj.core.QBJResolver method)
response (yatel.client.QBJResponse attribute)
rfind() (in module yatel.qbj.functions)
rsplit() (in module yatel.qbj.functions)
rstrip() (in module yatel.qbj.functions)
RunETL (class in yatel.cli)
Runserver (class in yatel.cli)
S
scan_dir() (in module yatel.etl)
scan_file() (in module yatel.etl)
simplifier() (in module yatel.typeconv)
size() (in module yatel.qbj.functions)
slice() (in module yatel.qbj.functions)
sort() (in module yatel.qbj.functions)
split() (in module yatel.qbj.functions)
SQL_ALCHEMY_TYPES (in module yatel.db)
stack_trace (yatel.client.QBJResponse attribute)
startswith() (in module yatel.qbj.functions)
std() (in module yatel.qbj.functions)
(in module yatel.stats)
strip() (in module yatel.qbj.functions)
sum() (in module yatel.qbj.functions)
(in module yatel.stats)
swapcase() (in module yatel.qbj.functions)
SYNONYMS (in module yatel.yio)
T
TABLES (in module yatel.db)
Test (class in yatel.cli)
time() (in module yatel.qbj.functions)
times() (in module yatel.qbj.functions)
title() (in module yatel.qbj.functions)
to_num_default() (in module yatel.weight.euclidean)
TO_PYTHON_TYPES (in module yatel.typeconv)
to_seq_default() (in module yatel.weight.levenshtein)
TO_SIMPLE_TYPES (in module yatel.typeconv)
to_uri() (in module yatel.db)
today() (in module yatel.qbj.functions)
TYPES_TO_NAMES (in module yatel.typeconv)
U
upper() (in module yatel.qbj.functions)
uri (yatel.db.YatelNetwork attribute)
utcnow() (in module yatel.qbj.functions)
utctime() (in module yatel.qbj.functions)
utctoday() (in module yatel.qbj.functions)
V
validate() (in module yatel.qbj.schema)
validate_conf() (in module yatel.server)
validate_read() (yatel.db.YatelNetwork method)
var() (in module yatel.qbj.functions)
(in module yatel.stats)
variation() (in module yatel.qbj.functions)
(in module yatel.stats)
Version (class in yatel.cli)
version() (yatel.yio.core.BaseParser class method)
W
weight() (in module yatel.weight)
(yatel.weight.core.BaseWeight method)
(yatel.weight.euclidean.Euclidean method)
(yatel.weight.hamming.Hamming method)
(yatel.weight.levenshtein.DamerauLevenshtein method)
(yatel.weight.levenshtein.Levenshtein method)
weights() (in module yatel.weight)
(yatel.weight.core.BaseWeight method)
weights2array() (in module yatel.stats)
WSGI_BASE_TPL (in module yatel.server)
X
XMLParser (class in yatel.yio.yxf)
xroot() (in module yatel.qbj.functions)
Y
yatel (module)
(yatel.client.QBJResponse attribute)
yatel.cli (module)
yatel.client (module)
yatel.cluster (module)
yatel.cluster.kmeans (module)
yatel.db (module)
yatel.dom (module)
yatel.etl (module)
yatel.qbj (module)
yatel.qbj.core (module)
yatel.qbj.functions (module)
yatel.qbj.schema (module)
yatel.qbj.shell (module)
yatel.server (module)
yatel.stats (module)
yatel.typeconv (module)
yatel.weight (module)
yatel.weight.core (module)
yatel.weight.euclidean (module)
yatel.weight.hamming (module)
yatel.weight.levenshtein (module)
yatel.yio (module)
yatel.yio.core (module)
yatel.yio.yjf (module)
yatel.yio.yxf (module)
YatelDOM (class in yatel.dom)
YatelHttpServer (class in yatel.server)
YatelNetwork (class in yatel.db)
YatelNetworkError
YF_STR_VERSION (in module yatel.yio.core)
YF_VERSION (in module yatel.yio.core)
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