This is a re-implementation of an existing pipeline developed originally by core and the webteam. The new version uses eHive, so familiarity with this system is essential, and has been written to use as little memory as possible.
This is the way we retrieve the database connections to work with. The registry file should specify:
Here is an example of a registry file used for the first run of the pipeline (Ensembl v72). Note the use of the Registry object within a registry file and the scoping of the package. If you omit the -db_version parameter and only use HEAD checkouts of Ensembl then this will automatically select the latest version of the API. Any change to version here must be reflected in the configuration file.
package Reg;
use Bio::EnsEMBL::Registry;
Bio::EnsEMBL::Registry->no_version_check(1);
Bio::EnsEMBL::Registry->no_cache_warnings(1);
{
my $version = $ENV{RELEASE};
my $user = 'ensro';
my $host = 'ensdb-5-g-07';
my $port = 5307;
Bio::EnsEMBL::Registry->load_registry_from_multiple_dbs(
{
-host => $host,
-port => $port,
-db_version => $version,
-user => "user",
-NO_CACHE => 1,
}
);
}
1;
You give the registry to the init_pipeline.pl script via the -registry option
We recommend if you have a number of parameters which do not change between releases to create a configuration file which inherits from the root config file e.g.
package MyCnf;
use base qw/Bio::EnsEMBL::Production::Pipeline::PipeConfig::GTF_conf/;
sub default_options {
my ($self) = @_;
return {
%{ $self->SUPER::default_options() },
#Override of options
};
}
1;
If you do override the config then you should use the package name for your overridden config in the upcoming example commands.
Set to the base checkout of Ensembl. We should be able to add ensembl-hive/sql onto this path to find the SQL directory for hive e.g.
export ENSEMBL_CVS_ROOT_DIR=$HOME/work/ensembl-checkouts
Give the password to use to log into a database server e.g.
export ENSADMIN_PSW=wibble
Where Multiple Supported is supported we allow the user to specify the parameter more than once on the command line. For example species is one of these options e.g.
-species human -species cele -species yeast
| Name | Type | Multiple Supported | Description | Default | Required |
|---|---|---|---|---|---|
-registry |
String | No | Location of the Ensembl registry to use with this pipeline | - | YES |
-base_path |
String | No | Location of the dumps | - | YES |
-pipeline_db -host= |
String | No | Specify a host for the hive database e.g. -pipeline_db -host=myserver.mysql |
See hive generic config | YES |
-pipeline_db -dbname= |
String | No | Specify a different database to use as the hive DB e.g. -pipeline_db -dbname=my_dumps_test |
Uses pipeline name by default | NO |
-species |
String | Yes | Specify one or more species to process. Pipeline will only consider these species | - | NO |
-pipeline_name |
String | No | Name to use for the pipeline | $USER_gtf_dump_$release | NO |
-release |
Integer | No | The release to dump | Software version | NO |
-email |
String | No | Email to send pipeline summaries to upon its successful completion |<EMAIL_ADDRESS>| NO |
init_pipeline.pl Bio::EnsEMBL::Production::Pipeline::PipeConfig::GTF_conf \
-pipeline_db -host=my-db-host -base_path /path/to/dumps -registry reg.pm
init_pipeline.pl Bio::EnsEMBL::Production::Pipeline::PipeConfig::GTF_conf \
-pipeline_db -host=my-db-host -species anolis -species celegans -species human \
-base_path /path/to/dumps -registry reg.pm
nohup
init_pipeline.pl
configuration from above
-base_path
parameterinit_pipeline.pl
2>&1
is important as this clobbers STDERR into STDOUT> my_run.log
then sends the output to this file. Use tail -f
to track the pipelinebeekeeper.pl -url mysql://usr:pass
server:port/db -reg_conf reg.pm -loop -sleep 5 2>&1 > my_run.log &@Hive gives us the ability to run any Process outside of a database pipeline
run using standaloneJob.pl
.


And stunning Suraya El-Wakil has said that her comedian husband isn't being bullied by campmate Ian Wright.
After a series of altercations, I'm A Celebrity viewers accused the former footballer of bullying Andrew and ostracising him from camp.
Ofcom has even confirmed that it has received complaints on the subject.
However, Andrew's wife has revealed that she doesn't think that is the case at all.
Read more: I'm A Celebrity viewers say Caitlyn Jenner's trial was "rigged"
After she landed in Brisbane, Suraya told The Mirror that she doesn't think her other half is being bullied.
"Is it bullying? No, not at all. He’s a grown-up man. They’re all fine," she said.
She added: "You put anyone in that environment and you’re going to have disagreements, with sleep deprivation and food deprivation."
Read more: Kate Middleton completes her two-week "secret work experience"
Suraya also revealed that Andrew "isn't the easiest" person to live with.
And she said she sympathised with campmate Caitlyn Jenner after he took a nap instead of doing the washing-up with her.
"I will be the first to tell you he is not the easiest to live with. Not doing the dishes after dinner is a daily struggle, so I feel for you, Caitlyn," she said.
Andrew and Suraya – who married in 2016 – have three children together.
The comic rarely shares pictures of his wife on social media, preferring instead to keep his private life private.
Suraya will now join Dan Osborne, Derek Draper and Ian Wright's wife Nancy at the plush Palazzo Versace hotel ahead of the show's first elimination.
Head to our Facebook page @EntertainmentDailyFix and let us know what you think of our story.


Bachelor of Electronic System Engineering (UTM)
Name: Muhammad Hafizuddin Bin Redzuan
Age: 24 years
Current Location: Kuala Lumpur, Malaysia
Hometown: Parit Buntar, Perak, Malaysia
Hi! You can call me Hafiz and I am enthusiastic engineer wannabe. Graduated with a Diploma in Electrical Engineering (Power) and still studying in Bachelor of Electronic System Engineering.
I love to try and learn new things, self-learner and highly motivated. Actively training Taekwondo which I believe can help in physical activities, self-discipline and stay focus in daily life. I am also one of an assistant Taekwondo instructor at my club as my part time job.
Good concentration in hardware and software development eager to join a reputable organization to begin a fulfilling and lifelong career.
Involved and assist in Artificial Intelligence researcher mainly in Deep Learning for computer vision. The project involved on objection detection application using custom object detection that desired. The project also involved some Internet of Things (IoT) application.
Company - Centre for Artificial Intelligence and Robotic (CAIRO)
Duration - 3 months [June 2019 ~ Sep. 2019]
Coordinate activities of engineering or technical
personnel involved in analyzing fault, repair, maintaining
and testing of electrical equipment such as transformer,
switchgear, cable, meter and etc.
Company - Tenaga Nasional Berhad (TNB)
Duration - 5 months [Nov. 2016 ~ March 2017]
Electronic Systems Engineering is a broad engineering field that encompasses many subfields including those that deal with power, instrumentation engineering, telecommunications, semiconductor circuit design, Artificial Intelligence (AI) and many others. My FYP related to AI and IoT project.
University - Universiti Teknologi Malaysia (UTM)
Session - 2017 ~ 2020
CGPA - 3.56 (Dean's List)
Emphasise on the understanding and acquisition of basic principles and skills in the field of electrical engineering, and also on a wide range of subareas including electronics, control systems, instrumentation and power systems. My FYP related to basic home automation.
University - Universiti Teknologi Malaysia (UTM)
Session - 2014 ~ 2017
CGPA - 3.14
School - Sekolah Menengah Kebangsaan Agama (SMKA) Kerian
Session - 2009 ~ 2013
Result - 9A 1B 1C ( 3A+'s in Physics, Mathematics and Additional Mathematics )


Get data:
Adults Reporting Personal Use of PesticidesCommercial Use of "Best Practice" Products
Commercial Use of Fungicides
Commercial Use of Herbicides
Commercial Use of Insecticides
Commercial Use of Insecticides (Organophosphate)
Commercial Use of Insecticides (Pyrethroid/Pyrethrin)
Commercial Use of Rodenticides
Insecticides (Carbamate)
Nitrogen Dioxide (NO2)
NYC Agency Use of "Best Practice" Products
NYC Agency Use of Fungicides
NYC Agency Use of Glyphosate
NYC Agency Use of Herbicides
NYC Agency Use of Insecticides
NYC Agency Use of Mosquito Control
NYC Agency Use of Rodenticides
Regular Exterminator Service
Data Stories
About Pesticides
Pesticides
About Pesticides
Pesticides are chemicals applied to kill or control insects, rats and mice, undesirable plants and weeds, or fungi (e.g., mold). Pesticides are often categorized by type of use (e.g., rodenticide, insecticide) or chemical class (e.g., organophosphate, pyrethroid).
Modern pesticides have been developed to have less persistence in the environment than earlier chlorine-based chemicals such as DDT. Pesticides may be applied by a commercial applicator or a non-professional who has purchased a product from a store.
This portal summarizes data about the quantity, types and locations of pesticides that are applied by state-certified pesticide applicators. Using survey data, the portal also reports data on peoples' personal use of pesticides, and the frequency with which a pest control professional visits homes.
Pesticides and Health
Exposure to pesticides can occur from consuming foods or beverages that contain pesticide residues, from direct contact with the skin or eyes, or from breathing air in areas where pesticides are applied. Health effects from exposure to pesticides vary by chemical class. In general, short-term effects on humans from high levels of exposure include damage to the skin and eyes, difficulty breathing, neurological tremors or seizure and, in extreme cases, loss of consciousness and death. Current research is investigating whether chronic exposure to certain pesticides increases risk of some cancers, reproductive and developmental problems and neurodegenerative diseases such as Parkinson’s disease.
About the Data and Indicators
Earlier years (1999-2002) of commercial pesticide reporting are more likely to contain inconsistencies based on differences in reporting quantities before or after dilution.
Under-reporting of commercial application probably occurs despite the legal reporting requirements.
Liquid and solid forms of the same chemicals are not combined, which prevents presentation of total pesticide applications in some cases.
Data on personal pesticide use and exterminator visits are measured using surveys that depend on the study participants' accurate recollections and reporting.
Prevention
To reduce exposure to pesticides, NYC promotes the practice of integrated pest management. Individuals, property owners and managers, co-op and condominium boards should practice and purchase integrated pest management services that include:
- Inspection for and elimination of sources of food, water and shelter for insects and rodents in your household and building.
- Repair of cracks and holes to limit the movement of pests in and around your home or building.
- Use of less toxic products such as boric acid and desiccants, containerized baits, and gels.
- Though many consumer products are available, people should remember that they are poisons and be careful in choosing and using the safest and most effective products available.
- Always read and follow instructions on product labels.
- Avoid the use of sprays, bombs or foggers. Tempo, tres pasitos and cockroach chalk are illegal to sell to consumers, and should never be used.
- Keep rodenticides away from pets by using containerized bait. Call the Poison Control Center (212-POISONS) if you suspect an exposure.
Key Messages
Since the residential use of the organophosphate pesticides chlorpyrifos and diazinon were prohibited or phased out, beginning in the year 2000, professional applications of these products have declined significantly.
The professional use of “Best Practice” insecticides - those that are effective against pests, but have low toxicity and/or low potential for exposure to humans - have increased since the reporting of commercial pesticide use began in 1997. These include boric acid, desiccant products, and containerized or gel form insecticide baits.
There are significant neighborhood differences in the amounts and types of pesticides used in NYC. The majority of commercial herbicide application in NYC occurs in parks and the far outer boroughs where a greater percentage of residents receive lawn care and landscaping services.The most prominent use of fungicides in NYC is on fragile plant ecosystems such as decorative gardens, golf courses and sports fields.


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Pick a place and gather your friends - or join other adventurous souls like yourself.
Everyone contributes to a shared pot, and the location is booked hassle free.
Stay at high end locations, and save hundred doing it!


About Me
Hi.I am Shaurya Syal a high school student from India. I like to share my views and ideas through this blog about virtually everything. I am fond of physics , sports( cricket , chess ),technology , indian and international current affairs, political science etc . Many articles on these topics will be put on this website so sign up for regular updates.
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A roughly chronological pictorial of my round Australia trip that I did in
Dec 99 - Feb 2000 on my Blackbird. As I was doing the trip, I wrote an
online diary for a local
online motorcycle site MCNews.com.au.
These pictures describe many of the events I've written about. For larger
versions of the photos, click on them. These are only some of the 6 rolls of
film that I took. They are the photos that best summed up my experience and
what I really saw.
Funny thing looking through these is that I didn't take many photos of the
first part of the trip. Not surprising given the crappy weather. So what
you see is mainly the second half of the trip after I have left Sydney.
|
|
Home Packing ready to go. The open pannier in the centre contains
the tent, sleeping bag, extra ground sheet/fly (army issue hoochie), a pair of
thongs, towel and boardies/speedos. Tank bag on the lower left and the top-box
behind.
|
|
|
Mt Gambier An extinct volcanic crater that juts up out of the
surrounding landscape. Here we are looking north-ish from one side of it
out across the south australian countryside.
|
|
|
GOR - The Great Ocean Road. Well, not quite, this is one of the
back roads that lead down to it but it all pretty much alike. From where this
road joins the GOR through to Melbourne - 100+ Km away, you have a shear cliff
one side going up and one on the other side going to the ocean. West of this
road is all exactly like this. Temperate rainforest, slightly damp road but
some magnificent roads. No wonder this has the reputation of being one of
The great motorcycling roads in the world. This is how I spent Christmas day.
Wonderful present don't you think!
|
|
|
Kingscliff A small town just sound of the NSW/QLD border. Mainly
tourist oriented with a lot of small apartments etc. This gorgeous little
camping ground was located out the back of one of the local caravan parks.
Note that the scene here is a typical morning fair for this trip.  This group I met on the road while
enjoying the local scenery. One of the number was out to learn how to corner.
She'd been riding for 3 years but in outback Queensland where corners where
what you did to go around a pothole. Played tag a lot of the time with the
guy on the worked ZZR1100. Kept up too! (Impressive considering I was running in
full touring mode with panniers, tank bag etc)
|
|
|
Airlie Beach The gateway to the Great Barrier Reef. Pissed down with
rain a lot of the time I was here, hence the lean-to to put my bags under.
Met James and Julia here as they camped right next to me on the left side of
the photo. Spent a few days here going scuba diving on the reef among other
things.
|
|
|
Back of Nowhere - QLD. The infamous day.  Unfortunately my
map reading skills also went bush, and so that's exactly where I found myself.
These two shots pretty much sum up going through the Dawes Range and State
Forest.
While the scenery looks gorgeous, what it doesn't show you is the marble sized
gravel and the very steep and twist roads that I had to travel on. Would have
been wonderful except for the fact there was no tar and I didn't really have
a working rear brake.
|
|
|
|
|
Mt Isa When it's hot, you don't bother with the tent. Just sleep
under the open skies. Mt Isa is a mining town.  I caught up with James and Julia here (they were
camping just to the right of shot) when their 4WD decided to toss bits of its
gearbox down the road. We were the only temporary residents there and we kept
getting odd looks. James was very happy to leave after 6 days there.
|
|
|
The outback For the foreigners, this is the real outback. 5km out of
Mt ISA and this is all you see for the next 200 odd kilometers. A thin veneer
of tar unceremoniously dumped straight on top of the surrounding red dirt.
Once this dirt gets in it never comes out again - clothes, bikes, hair
everything. Now, imagine tearing along this road dodging 1.5 metre high
Wedge Tail eagles (that's when they are standing up on the ground, not flying!)
and then seeing a 5 trailer road train bearing down on you at 140+km/h leaving
a thick choking red cloud behind it that you can't see through for the next 5
minutes and you have a pretty good idea of what the place is like.
|
|
|
NT Border As unbelievable as it sounds, this is the border to the
Northern Territory. About 100m behind this shot is the scenery you see in the
above picture. Hit the border and it is as though someone bulldozed the entire
joint flat. Not a tree in sight as you can see! However, this is gateway to
the bigbore bike rider's paradise. No Speed Limits! Funny feeling passing
cop cars at 250km/h and not worrying about getting a ticket.  A Vertical mountain range that
stretches some couple of hundred kilometers. Spent the day travelling through
here and met Beau on the Suzuki Freewind. The ranges are the home to the next
shot, and many more like it. This is looking east in the late afternoon with
the sun setting behind me.
|
|
|
Ormiston Gorge Once a jolly swagmag camped by a billabong,
under the shade of a coolibah tree
so go the words of Waltzing Matilda. Couldn't think of a better way of
describing this place. Went for a swim up around the corner here and then sat
in the rain as an outback storm rumbled overhead.
|
|
|
Devil's Marbles A Natural occurrance of thousands of boudlers that
have worn through millions of years to look like this. My bike gives you an
idea of the scale of these things.
|
|
|
Uluru The famous Rock from a distance on the way out there. This is
taken from the top of a dune about 40km away. Red dirt, and more red dirt
and even more red dirt....
|
|
|
King's Canyon This small watering hole is known as The Garden of
Eden. It's easy to see why. All around is scotching hot 40-plus degree days
that fry an egg on contact and we have this idealic gorge with cold running
water.
|
|
|
Glendambo Errrr... can't say more other than aussie humour at its
best.
|
|
|
Kulgera Hundreds of kilometres from anywhere and I run across this
old BSA. Nothing special you think. Well, take a look at the large photo. Comes
with two saddle seats, knobblies and packed to the hilt. What you can't see
is the Belgian plates on it, or the rider and his pillion. This bike is on its
second lap of the world. And this guy spends a lot of time doing
non-tarmac work. He asked me about the state of the roads from here directly
through to Ceduna. Take a look at the map (Kulgera is on the SA/NT border).
That's about 800km in a straight line across red dirt with not a house, let
alone a petrol station, in sight.
|
|
|
The Nullarbor A name derived from the latin Nullus Arboris - no
trees means that quite literrally. Growing on limestome, the shrubs barely are
a metre high. Seeing this makes me realise that I'm almost finished the trip.
Only a couple of thousand more kilometres to go.
|
|
|
Head of Bight The head of the Great Australian Bight (the big
curved bit on the bottom of the country. This is the KR-1S nutter that I came
across out here. With only a backpack and a couple of tools, this young kid
was leaving home for Perth.  In
winter they do whale watching here when the annual migration takes place.
|
|
|
Balladonia Roadhouse The second last night. The three bikes that
formed the last part of the road trip. My Blackbird, a Honda KLV750 and the
KR-1S. Couldn't think of a more odd assortment of bikes riding together.
|


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How to Fish:
As you perfect the fishing techniques taught by the Fishermen's Guild, you must try to catch higher-grade fish. Actually, as your skills increase, you'll no longer be allowed to catch the low-grade fish you once caught.
However, as your skills increase, you must be careful, since you'll no longer catch the fish that bite easily. High-level fish are physically stronger and smarter than low-level fish.
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--- layout: default title: Migrating from the old platform ---
The are no changes at all in Compact Identifier or URI resolution, although we recommend switching all URI resolutions to Compact Identifiers, as that is going to be the standard from now on. We will still provide full support to URI resolution, and there is no expiry date for that.
https://ebi.identifiers.org/pdb
has been moved to https://registry.identifiers.org/registry/pdb
, and can be navigated to using the new web as detailed
in the web services documentation.
https://identifiers.org/rest/collections/expand
has been moved tohttps://registry.api.identifiers.org/resolutionApi/getResolverDataset
, as described in the API documentation.
{ "id": "MIR:00000002", "prefix": "chebi", "name": "ChEBI", "definition": "Chemical Entities of Biological...", "pattern": "^CHEBI:\\d+$", "url": "http://identifiers.org/chebi", , "resources": [ { "id": "MIR:00100009", "accessURL": "https://www.ebi.ac.uk/chebi/CHEBI:{$id}", "info": "ChEBI (Chemical Entities of ...", "official": true, "resourcePrefix": "ebi", "localId": "36927", "resourceURL": "https://www.ebi.ac.uk/chebi/" "institution": "EMBL-EBI", "testString": "carbon-14", "location": "UK", } ] }
{ "id": 1, "mirId": "MIR:00000002", "prefix": "chebi", "name": "ChEBI", "description": "Chemical Entities of Biological...", "pattern": "^CHEBI:\d+$", "created": "2019-06-11T14:15:26.925+0000", "modified": "2019-06-11T14:15:26.925+0000", "sampleId": "36927", "resources": [ { "id": 3, "mirId": "MIR:00100009", "urlPattern": "https://www.ebi.ac.uk/chebi/CHEBI:{$id}", "name": "ChEBI (Chemical Entities of ...)", "description": "ChEBI (Chemical Entities of...", "official": true, "providerCode": "ebi", "sampleId": "36927", "resourceHomeUrl": "https://www.ebi.ac.uk/chebi/", "institution": { "id": 2, "name": "EMBL-EBI", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "location": { "countryCode": "GB", "countryName": "United Kingdom" } } } ] }
| Old API | New API | Information |
|---|---|---|
| id | Internal database id of the namespace. | |
| id | mirId | In the new API, id is the internal database id of the namespace. |
| name | Namespace name. | |
| definition | description | |
| url | Internal Identifiers.org URL has been deprecated. | |
| created | Namespace addition date. | |
| modified | Namespace last modified date. | |
| sampleId | Namespace sample ID. | |
| prefixed | namespaceEmbeddedInLui |
| Old API | New API | Information |
|---|---|---|
| id | Internal database id of the resource. | |
| id | mirId | In the new API, id is the internal database id of the resource. |
| accessURL | urlPattern | |
| name | Resource name. | |
| info | description | |
| resourcePrefix | providerCode | |
| localId | sampleId | |
| resourceURL | resourceHomeUrl | |
| institution | institution is now an object. Refer to its definition. | |
| testString | testString has been deprecated. | |
| location | location is now an object. Refer to its definition. |
| Field | Information |
|---|---|
| id | Internal database id of the institution. |
| name | Name of the institution. |
| homeUrl | Institution home URL. |
| description | Institution description. |
| location | Location object containing the institution's location. Refer to the definition. |
| Field | Information |
|---|---|
| countryCode | ISO-3166 compliant country code. |
| countryName | ISO-3166 compliant country name. |


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