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The next time you see someone wearing a pair of Levi’s® jeans, remember that these pants are a direct descendant of that first pair made back in 1873. That year, two visionary immigrants — Levi Strauss and Jacob Davis — turned denim, thread and a little metal into what has become the most popular apparel on earth.
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Iterate all the data in a stream
npm install stream-each
``` js var each = require(‘stream-each’)
each(stream, function (data, next) { console.log(‘data from stream’, data) // when ready to consume next chunk next() }, function (err) { console.log(‘no more data’) }) ```
each(stream, iterator, cb)
Iterate the data in the stream by calling the iterator function with (data, next)
where data is a data chunk and next is a callback. Call next when you are ready to
consume the next chunk. Optionally you can call next with an error to destroy the stream
When the stream ends/errors the callback is called if provided
MIT
stream-each
is part of the mississippi stream utility collection which includes more useful stream modules similar to this one.


allowedOrigins, a comma-separated list of the ascii
serializations of origins that are allowed to access the resources. An
ascii serialized origin looks like a URL containing only the scheme,
the authority, the port number (if it's non-default for that scheme),
and no path component. For example, two valid origins are
http://foo.com, or http://foo.com:8080.
The default value
is *, meaning allow all origins. In this case, the server
echoes back whatever origin was provided by the request header.
If an allowed origin contains one or more "*" characters (for example
http://*.domain.com), then "*" characters are converted to ".*", "."
characters are escaped to "\." and the resulting string is
interpreted as a regular expression. Allowed origins can therefore be
more complex expressions: such as http://*.example.com, which matches
any subdomain of example.com; or https?://*.example.[a-z]{3}(:[0-9]+)?
which matches a scheme of http or https, all subdomains, any 3 letter
top-level domain, and any port number (.com, .net, .org, etc.).


| mitml-package | mitml: Tools for multiple imputation in multilevel modeling |
| amelia2mitml.list | Convert objects of class 'amelia' to 'mitml.list' |
| anova.mitml.result | Compare several nested models |
| as.mitml.list | Convert a list of data sets to 'mitml.list' |
| c.mitml.list | Concatenate lists of imputed data sets |
| cbind.mitml.list | Concatenate lists of imputed data sets |
| clusterMeans | Calculate cluster means |
| confint.mitml.testEstimates | Compute confidence intervals |
| is.mitml.list | Check if an object is of class 'mitml.list' |
| jomo2mitml.list | Convert imputations from long format to 'mitml.list' |
| jomoImpute | Impute single-level and multilevel missing data using 'jomo' |
| justice | Example data set on employees' justice perceptions and satisfaction |
| leadership | Example data set on leadership style and job satisfaction |
| long2mitml.list | Convert imputations from long format to 'mitml.list' |
| mids2mitml.list | Convert objects of class 'mids' to 'mitml.list' |
| mitmlComplete | Extract imputed data sets |
| multilevelR2 | Calculate R-squared measures for multilevel models |
| panImpute | Impute multilevel missing data using 'pan' |
| plot.mitml | Print diagnostic plots |
| rbind.mitml.list | Concatenate lists of imputed data sets |
| read.mitml | Read 'mitml' objects from file |
| sort.mitml.list | Sort a list of imputed data sets |
| studentratings | Example data set on student ratings and achievement |
| subset.mitml.list | Subset a list of imputed data sets |
| summary.mitml | Summary measures for imputation models |
| testConstraints | Test functions and constraints of model parameters |
| testEstimates | Compute final estimates and inferences |
| testModels | Test multiple parameters and compare nested models |
| with.mitml.list | Evaluate an expression in a list of imputed data sets |
| within.mitml.list | Evaluate an expression in a list of imputed data sets |
| write.mitml | Write 'mitml' objects to file |
| write.mitmlMplus | Write 'mitml' objects to Mplus format |
| write.mitmlSAV | Write 'mitml' objects to native SPSS format |
| write.mitmlSPSS | Write 'mitml' objects to SPSS compatible format |


{% extends 'land/base.html' %} {% block central_content %}
Try selecting more than one file when browsing for files.


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This repository contains PHP and Javascript libraries useful for astronomical calculations. Since the Earth is an astronomical body too (surprise!) and many astronomical calculations require geographical parameters, a good amount of geographical libraries are included as well.
PHP libraries are stored in the libs-php directory, Javascript libraries in the libs-js directory. There are examples how to use each of the libraries in the corresponding examples-xxx directories. This is built in the form of a little website, the entry point being index.html in the root directory. A live version can be found at https://astronomy-libs.mpopp.net
In most cases, PHP and Javascript libraries with the same name (e.g. Coordinates.php and coordinates.js) are (mostly) equivalents of each other, but there may be exceptions.
These libraries deliberately support only recent technology. For PHP libraries and examples, Apache 2.2+ and PHP 5.3+ are required. Supported browsers are Firefox, Google Chrome, Internet Explorer and Opera in their current versions on Linux, Windows and Android (as available).
Contributions are very welcome. Feel free to fork, fix bugs, improve libraries and examples, write new libraries and examples, redesign, do whatever comes to mind. Pull requests are appreciated.
Coordinates contains functions to convert float coordinates (geographical latitude/longitude or astronomical RE/DE coordinates) to text representation and vice versa.
Distances contains functions to convert distance units, like kilometers, miles, astronomical units, light years and parsecs. Another function calculates the geographical distance between 2 latitude/longitude pairs (on Earth), yet another function calculates the distance between 2 points while the distance to each of the points and the angle separating is given.
Location (geographical latitude & longitude) contains a wrapper to provide a uniform format to be used by other libraries.
The Javascript version also contains a function to obtain the geographical location using the Geolocation API
Simbard provides methods to query the SIMBAD Astronomical Database (http://simbad.u-strasbg.fr/simbad/) using their web services at http://cdsws.u-strasbg.fr/axis/services/Sesame?wsdl


{% extends 'base.html' %} {% block container %}
Flooding not expected
Flooding Possible
High Probability of Flooding


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Jose Mourinho readying shock Tottenham move for Zlatan Ibrahimovic
Tottenham manager Jose Mourinho is considering a shock move for Zlatan Ibrahimovic following the striker’s exit from LA Galaxy.
The Swede is available on a free transfer after being released by the Galaxy following two seasons on the west coast.
Ibrahimovic has played under Mourinho on two occasions and the Portuguese convinced the striker to join Manchester United on a free in 2016.
The 37-year-old is believed to be in talks with former club AC Milan over a return to Europe but Mourinho’s appointment in north London could prove pivotal.
According to the Telegraph, Mourinho wants back-up for Harry Kane and is considering hijacking Milan’s move for Ibrahimovic.
The Swede could be open to a return as he feels he has unfinished business in England following the manner of his departure in 2018.
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Ibrahimovic scored 26 goals in his first season at United but he tore his ACL towards the end of a glittering debut campaign and was unable to recapture his form upon his return.
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The Portuguese boss has been told he doesn’t have money to spend in January and must sell before he can buy.


|
QtLingo 1
QtLingo is an Application to make Qt Computer Translations easier
|
The QOnlineTts class provides TTS URLs generator.
| Type | Name |
|---|---|
| enum | Voice { NoVoice, Zahar, Ermil, ..., Omazh } |
| enum | Emotion { NoEmotion, Good, Evil, Neutral } |
| enum | [TtsError](tts-error) { NoError, UnsupportedEngine, UnsupportedLanguage, UnsupportedVoice, UnsupportedEmotion } |
| Return type | Data member |
|---|---|
| QOnlineTts(QWidget *parent = nullptr) | |
| void | generateUrls(const QString &text, QOnlineTranslator::Engine engine, QOnlineTranslator::Language lang, Voice voice = DefaultVoice, Emotion emotion = DefaultEmotion) |
| QList<QMediaContent> | media() |
| TtsError | error() |
| QString | errorString() |
| Return type | Data member |
|---|---|
| QString | voiceCode(Voice voice) |
| QString | emotionCode(Emotion emotion) |
| Emotion | emotion(const QString &emotionCode) |
| Voice | voice(const QString &voiceCode) |
This enum has the following values:
| Constant | Value | Engine | Code |
|---|---|---|---|
| QOnlineTts::NoVoice | -1 | Yandex | - |
| QOnlineTts::Zahar | 0 | Yandex | zahar |
| QOnlineTts::Ermil | 1 | Yandex | ermil |
| QOnlineTts::Jane | 2 | Yandex | jane |
| QOnlineTts::Oksana | 3 | Yandex | oksana |
| QOnlineTts::Alyss | 4 | Yandex | alyss |
| QOnlineTts::Omazh | 5 | Yandex | omazh |
This enum has the following values:
| Constant | Value | Engine | Code |
|---|---|---|---|
| QOnlineTts::NoEmotion | -1 | Yandex | - |
| QOnlineTts::Neutral | 0 | Yandex | neutral |
| QOnlineTts::Good | 1 | Yandex | good |
| QOnlineTts::Evil | 2 | Yandex | evil |
Indicates all possible error conditions found during the processing of the URLs generation.
| Constant | Value | Description |
|---|---|---|
| QOnlineTts::NoError | 0 | No error condition |
| QOnlineTts::UnsupportedEngine | 1 | Specified engine does not support TTS |
| QOnlineTts::UnsupportedLanguage | 2 | Unsupported language by specified engine |
| QOnlineTts::UnsupportedVoice | 3 | Unsupported voice by specified engine |
| QOnlineTts::UnsupportedEmotion | 4 | Unsupported emotion by specified engine |
Constructs an object with empty data and with parent. You can use generateUrls() to create URLs for use in QMediaPlayer.
Splits text into parts (engines have a limited number of characters per request) and returns list with the generated API URLs to play this text on language with voice. emotion argument only affects Yandex engine.
Example:
Returns the error that was found during the generating tts. If no error was found, returns NoError
. The text of the error can be obtained by errorString().
Returns a human-readable description of the last tts URL generation error that occurred.
Returns the code of the voice. See table below.
Returns the code of the emotion. See table below.
Returns the emotion from the emotionCode. Useful for CLI interface.
Returns the voice from the voiceCode. Useful for CLI interface.


{% extends "resume_app/base.html" %} {% block content %}
The exploring phase allows you to get ideas of how to make your resume more competitive. Look at what other applicants are bringing to the table. See how they have arranged their work experience or skill sets or education information to draw attention. You can read critiques left by other users on your resume. Using those suggestions, make changes that will nuance your resume to look more attractive to potential employers. Other applicants will give you useful recommendations about the format of your document and the template you are using. Or they will comment about how you can make your resume clutter free and emphasize strong points that are not highlighted enough.
If you have any insights on other applicant’s resumes, pay it forward by leaving comments on there. This phase will strengthen your resume much more than automated systems that other sites use.


Watch: How is the Likud handling Netanyahu's indictment? Likud consultant Dov Harlap speaks with ILTV about possibility Attorney General could rule Netanyahu may not serve as PM under indictment. 24 Nov 2019, 21:36 by ILTV


Three years of experience in Python programming. Worked on several modules such as Flask, FastAPI, Sklearn, Pandas, Numpy, Tkinter, PyQT, etc.
Worked on MySQL Database with Python. RESTApi for accessing database using Flask, psycopg2, SQLAlchemy, etc. module in python.
Android and iOS application Development using dart programming language. Familiar with Material and Cupertino designs
Good understanding of HTML, CSS, JavaScript, and Bootstrap. Backend Development using Flask and jinja template. Deployment and database connection.
Predict as many tags (c, c++, python, memory, etc. ) as possible with high precision and recall.
Tagging will help StackOverflow to give Question to right persons to answer.
Incorrect tags could impact customer experience on StackOverflow.
View
Jupyter Notebook
Challenge is to predict whether someone will enjoy a movie based on how much they liked or disliked other
movies. Netflix uses those predictions to make personal movie recommendations based on each customer’s
unique tastes.
View
Jupyter Notebook
Identify which questions asked on Quora are duplicates of questions that have already been asked. This
could be useful to instantly provide answers to questions that have already been answered.
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Jupyter Notebook
Challenge is to develop algorithms to classify genetic mutations based on clinical evidence.
Data given are gene, variation, text, and class. The class varies from 1-9 out of which some belongs to
positive cancer result.
View
Jupyter Notebook
RESTfull API created in python using flask module. API is used to access the database for storing Shop
data such as item, price, discount, quantity, etc. API is deployed on Heroku.com.
View source code in
Github
I'm a Python developer with three years of experience. I did my B.E in Electronics from Mumbai University. Currently, I'm pursuing M.E in computer science from Mumbai University. I have used Python language in various fields such as API development, Artificial intelligence, IoT, Robotics, and database management. I have an intense passion for Data Science and Machine Learning. I have almost one year of experience in Computer vision and Machine learning.
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Important: Please read all of the following directions before starting the
quiz. Continue taking Jeopardy until you have attempted all 30 points and all open bonus questions.
- Questions come in four categories...
Jeopardy Directions
Important: Please read all of the following directions before starting the quiz. Continue taking Jeopardy until you have
attempted all 30 points and all open bonus questions.
- Questions come in four categories, Slide Identification, Terminology, Reading (which can also include video) and
Lecture (concept-based).
- All questions have 1 "answer" and 5 possible "questions", using the Jeopardy game show format.
- Questions are worth 1, 2, or 3 points, as indicated on the board.
- In each category, there are a total of four 1-point questions, two 2-point questions, and one 3-point question (11
points).
- The board shows 44 available points, but you can only attempt 30. Plan accordingly.
- Located at the last column and last row of the board are 10 initially unavailable bonus points that are displayed in
a faded out view. The bonus questions in the bottom row are all 1-point questions, and the bonus questions in the last
column are worth 1 point, 2 points, and 3 points.
- In order to access the bonus points, you must complete the questions associated to the column or row that they are
in. For example, if you complete all 16 of the one-point questions, you will earn access to the one point bonus at the
far right hand column of the board. If you would like to earn access to the “Terms Bonus” at the bottom of the second
column, you must complete all of the Terms questions in that column. Once you gain access to a bonus question, the
choice will no longer be faded, and it will be available to answer any time during the quiz, even after your 30 regular
points have been attempted.
- You MUST attempt no more than 30 points in total (the quiz should not allow you to do this), and no fewer than 30
(your responsibility to manage). Be sure to leave at least 1 one-pointer to finish with.
- After each response submitted, you will receive immediate feedback indicating whether your response was correct or
incorrect. Be sure to read and take note of the guidance offered for incorrect answers.
- The Jeopardy scoreboard (below) will tally your points attempted, points earned, category percentage, and points
remaining to attempt as you go. Please use this to your advantage in choosing questions and earning the maximum score.
- Category questions will only use images familiar to you from the visual note taking guides.
- Bonus questions often use images unfamiliar to you, requiring more analysis and reasoning on your part, and will
thus are harder than category questions. These questions do not test recall and recognition; instead, they test your
ability to apply what you know to deduce the correct answer.
- You can improve your final score by taking a Jeopardy again. Note that the game board is designed to randomize the
selection of questions. Even if you repeated your selections exactly, you wouldn't see an identical set of questions.
Some will be new. As you gain knowledge, you may attempt more challenging strategies than you did at first. That is the
beauty of Jeopardy!


19 comments
The error indicates that there are two JaCoCo agents configured for the same process. Then the second Agent actually fails to instrument classes again. You might check the Surefire debug log to see the effective command line and fix this.
The JaCoCo agent is plain Java and has no dependency on Maven, so Console is the only option to report errors.
marchof closed the issue
It appeared that activating the maven-surefire-report-plugin caused all unit tests to be ran twice and the argLine had 2 Jacoco agents in it the second time. Disabling the maven-surefire-report-plugin worked, but it might be worth looking in to.
I managed to trigger this in jenkins with mvn clean verify install, the install ran the tests again for some reason. I did not see the 'is already instrumented' message just the java.lang.instrument.IllegalClassFormatException failed to instrument ....
I just encountered the same output. Definitely a mess of output. I tried to see if removing the surefire and failsafe reporting helped, but it didn't seem to affect it either way. I'll be doing a bit more investigation.
Can't the output be handled better than flooding the build output? It sounds like an exceptional case and should be just caught and discarded. I've already gotten everything that I need from JaCoCo's Maven Plugin (initial instrumentation, report and check) so unless I find something during my investigation, maybe the output could at least be cleaned up (hidden away) in the short-term?
As was stated above by @marchof - this error message clearly indicates wrong configuration. Looks like activation of surefire-report-plugin leads to a doubled agent, which is not an exceptional case, but an error in configuration of JVM for tests. Thus it's preferably to fix ticket #40 than just a hide this output.
@tastle What exactly do you mean by "initial instrumentation"? Explicit instrumentation is typically not required and will not work together with the JaCoCo Java agent. The agent performs on-the-fly instrumentation. If classes have already been instrumented before manually ("offline" mode) this is invalid usage. Please see documentation: http://www.eclemma.org/jacoco/trunk/doc/instrument-mojo.html and http://www.eclemma.org/jacoco/trunk/doc/offline.html.
Warning: The preferred way for code coverage analysis with JaCoCo is on-the-fly instrumentation. Offline instrumentation has several drawbacks and should only be used if a specific scenario explicitly requires this mode. Please consult documentation about offline instrumentation before using this mode.
@marchof Sorry, I shouldn't have used "initial instrumentation". I should have said when the prepare-agent mojo is called. I am not doing any offline instrumentation. My setup is basically identical to this (http://www.eclemma.org/jacoco/trunk/doc/examples/build/pom.xml) with a prepare-agent, report and check.
@Godin I disabled my surefire and failsafe report plugins and I still have the problem. I'm going to triple-check with fresh eyes tomorrow morning.
Perhaps it would be good to produce a simple output message by default in the build output? Sure, there may be a lot of those one-line messages, but it'd be a fraction of the size of those stack traces. If stack trace output is desired, the -e flag could be provided to the build. (Just a thought. I'm not advocating the avoidance of fixing bad configuration :) )
ditto in Jenkins with JaCoco plugin 1.0.10 java.lang.instrument.IllegalClassFormatException: Error while instrumenting class com/company/a/b/c/dUtil.
at org.jacoco.agent.rt.internal_5d10cad.CoverageTransformer.transform(CoverageTransformer.java:91)
at sun.instrument.TransformerManager.transform(TransformerManager.java:169)
at sun.instrument.InstrumentationImpl.transform(InstrumentationImpl.java:365)
...
more output: https://issues.jenkins-ci.org/browse/JENKINS-16899
Even I got the same error and in my jenkins configuration I'm running the goals 'clean install'.
[INFO] --- maven-surefire-plugin:2.13:test (default-test) @ parser ---
[INFO] Surefire report directory: /home/user/parser/target/surefire-reports
TESTS
Running TestSuite
Configuring TestNG with: TestNG652Configurator
java.lang.instrument.IllegalClassFormatException: Error while instrumenting class org/testng/internal/Parameters.
at org.jacoco.agent.rt_6l8m50.CoverageTransformer.transform(CoverageTransformer.java:91)
at sun.instrument.TransformerManager.transform(TransformerManager.java:188)
-----
-----
Caused by: java.lang.IllegalStateException: Class org/testng/internal/Parameters is already instrumented.
at org.jacoco.agent.rt_6l8m50.core.internal.instr.ClassInstrumenter.assertNotInstrumented(ClassInstrumenter.java:138)
at org.jacoco.agent.rt_6l8m50.core.internal.instr.ClassInstrumenter.visitField(ClassInstrumenter.java:81)
-----
-----
Also to note I've defined jacoco agent in the argline for maven-surefire-plugin as below,
-javaagent:${user.home}/.m2/repository/org/jacoco/org.jacoco.agent/<IP_ADDRESS>212231917/org.jacoco.agent-<IP_ADDRESS>212231917-runtime.jar=destfile=${basedir}/target/jacoco.exec
If I don't set the jacoco agent in argline of surefire plugin configuration, then the report and check of jacoco-maven-plugin prints below error and don't produce jacoco execution file,
[INFO] --- jacoco-maven-plugin:<IP_ADDRESS>212231917:report (jacoco-site) @ parser ---
[INFO] Skipping JaCoCo execution due to missing execution data file
[INFO]
[INFO] --- jacoco-maven-plugin:<IP_ADDRESS>212231917:check (check) @ parser ---
[INFO] Skipping JaCoCo execution due to missing execution data file
By defining argline I'm able to produce reports but the above errors are coming up in the build log.
Please help me to get rid of these errors/warnings.
In my case is caused by maven-surefire-plugins: (ut+it)
< groupId>org.apache.maven.plugins< /groupId>
< artifactId>maven-surefire-plugin< /artifactId>
< configuration >
< skipTests >false</ skipTests >
< /configuration >
However if I set skipTests to true the error message disappears.
@danieldelhoyo As was said early in this thread - this is clearly a configuration problem. How we can help you without any information about your configuration? Do you use offline or online instrumentation? In case of online - how do you attach agent to tests? And so on... Since configuration can be done in many different ways, tons of questions can be asked and this looks like a pure waste of time for me. So the best option for you would be to provide an example of project (similar to yours), where problem can be reproduced, so that we will be able to dig into configuration to localize problem. Thanks for your understanding.
@Godin thank you, your comment was really helpful.
Nailed it, unit-tests had also prepare-agent and report as goal, this was causing the conflict in my case.
We are hitting exactly the same problem and I am unable to find out how to solve this. We use the follwoing pom.xml:
https://code.cor-lab.org/projects/rsb/repository/rsb-java/revisions/ff17c0dd008697f70dad27bd0319f4475ab87712/entry/pom.xml
Can anyone spot the problem with this?
As this seems to be kind of a common configuration issue it would be nice if there was a public documentation of how to get around this.
When I run Jacoco using the Jacoco maven plugin on a project, I get an enourmous amount of these exceptions in the log:
I get these exceptions for a lot of classes that come from external libraries, like Spring, Hibernate, JPA, Maven, etc., yet Jacoco seems to work fine and generates the reports correctly. I think that the issue is caused by the following line of code:
JacocoAgent.java, line 158:
final JacocoAgent agent = new JacocoAgent(options,
new IExceptionLogger() {
public void logExeption(final Exception ex) {
ex.printStackTrace();
}
});
Maybe it's a good idea not to have these exceptions in the log when they don't affect the correct behaviour of Jacoco? Or at least make it configurable, so that people with lots of exceptions in the log can turn it off? Also, printing them to the STDOUT is perhaps not be best way of logging things. Maven provides a org.apache.maven.plugin.logging.Log object, that should be used to log things that occur during a Maven Build.


Generated Thu Jan 10 14:55:24 EST 2019. FHIR version 4.0.0 for 4.0.0
| Path | Severity | Message |
| StructureDefinition/cr-core-patient: StructureDefinition | warning | A resource should have narrative for robust management [text.div.exists()] |
| StructureDefinition/cr-core-patient: StructureDefinition | warning | Name should be usable as an identifier for the module by machine processing applications such as code generation [name.matches('[A-Z]([A-Za-z0-9_]){0,254}')] |
| https://build.fhir.org/ig/:org:/:repo:/StructureDefinition/cr-core-patient | error | conformance resource /Users/kochm/Code/fhir-clinical-research-origin/src/resources/cr-core-patient.json canonical URL (http://hl7.org/fhir/:org:/cr-core-ig/StructureDefinition/cr-core-patient) does not match the URL (https://build.fhir.org/ig/:org:/:repo:/StructureDefinition/cr-core-patient) |
| /Users/kochm/Code/fhir-clinical-research-origin/src/resources/cr-core-patient | error | URL Mismatch http://hl7.org/fhir/:org:/cr-core-ig/StructureDefinition/cr-core-patient vs https://build.fhir.org/ig/:org:/:repo:/StructureDefinition/cr-core-patient |
| Path | Severity | Message |
| StructureDefinition/cr-core-researchstudy: StructureDefinition | warning | A resource should have narrative for robust management [text.div.exists()] |
| StructureDefinition/cr-core-researchstudy: StructureDefinition | warning | Name should be usable as an identifier for the module by machine processing applications such as code generation [name.matches('[A-Z]([A-Za-z0-9_]){0,254}')] |
| https://build.fhir.org/ig/:org:/:repo:/StructureDefinition/cr-core-researchstudy | error | conformance resource /Users/kochm/Code/fhir-clinical-research-origin/src/resources/cr-core-researchstudy.json canonical URL (http://hl7.org/fhir/:org:/cr-core-ig/StructureDefinition/cr-core-researchstudy) does not match the URL (https://build.fhir.org/ig/:org:/:repo:/StructureDefinition/cr-core-researchstudy) |
| /Users/kochm/Code/fhir-clinical-research-origin/src/resources/cr-core-researchstudy | error | URL Mismatch http://hl7.org/fhir/:org:/cr-core-ig/StructureDefinition/cr-core-researchstudy vs https://build.fhir.org/ig/:org:/:repo:/StructureDefinition/cr-core-researchstudy |
| Path | Severity | Message |
| StructureDefinition/cr-core-researchsubject: StructureDefinition | warning | A resource should have narrative for robust management [text.div.exists()] |
| StructureDefinition/cr-core-researchsubject: StructureDefinition | warning | Name should be usable as an identifier for the module by machine processing applications such as code generation [name.matches('[A-Z]([A-Za-z0-9_]){0,254}')] |
| https://build.fhir.org/ig/:org:/:repo:/StructureDefinition/cr-core-researchsubject | error | conformance resource /Users/kochm/Code/fhir-clinical-research-origin/src/resources/cr-core-researchsubject.json canonical URL (http://hl7.org/fhir/:org:/cr-core-ig/StructureDefinition/cr-core-researchsubject) does not match the URL (https://build.fhir.org/ig/:org:/:repo:/StructureDefinition/cr-core-researchsubject) |
| /Users/kochm/Code/fhir-clinical-research-origin/src/resources/cr-core-researchsubject | error | URL Mismatch http://hl7.org/fhir/:org:/cr-core-ig/StructureDefinition/cr-core-researchsubject vs https://build.fhir.org/ig/:org:/:repo:/StructureDefinition/cr-core-researchsubject |


--- layout: post title: 'LIFT07: Collaboration and Innovation in Workspace that Works' date: 2007-02-07 00:00:00 categories: business digital-media personal social ---
LIFT07: Collaboration and Innovation in Workspace that Works - Clark Elliott
CE starts the session by getting us all to stand up and touch hands with 5 other people in the room.
"What's work in the 21st century? I think Dilbertville is dead. I'm a space planner, a workspace strategist. Studied social psychology. The french word "travail" comes from the Latin word for "torture". The word "labour" has connotations with pain. In the 21st century, this word has nothing to do with knowledge work - we're not doing physical labour."
CE shows coloured map of a network of communications within a real company - not an organogram, a real documentation of what's there.
"So how might you organise office buildings?"
CE goes around the room asking attendees what they want out of the session. Most interesting ones I heard were a couple of Swedish industrial design students studying crowded spaces and queuing strategies - wow - and a Swiss guy who, in a strong French accent, talks about how he cannot concentrate at work because "my colleague, she eez so beautiful..." :)
CE: Themes there were collaboration, virtual collaboration, obstacles to change, relationships, enjoyable, interacting with human beings (even when somewhere else). It's all about the intersection between technology, people and space. Communicating properly over virtual methods (e.g. video-conferencing) is difficult.
CE: There's a lot of resistance to change: closed-office workers don't want open space. Senior managers see loss of offices as loss of status. Concentration and interruptions are a factor. On Lake Geneva is a beautiful building but useless office: many closed rooms. People send emails to someone 3 feet away. The phsyical space stops communication. At the UN you have issues of status (certain grades get the right to numbers of windows). But the goal of the business is to produce results.
(So far so good: people don't like change and you need communication in office spaces. Nothing particularly ground-breaking here)
CE: If you create modern office environments you should change everything. You don't get teamwork between a group of folks who are all compensated radically differently. Space-planning strategies need to understand the organisation. Cultures are driven by cost and quality control. Creative thinking is what this is about: we're knowledge workers.
(Wondering to myself what %age of the global working population are "knowledge workers". Definitely over-represented in the LIFT07 delegates ;))
CE: Trend: activity based design. Shows example of a large company with different "zones": printing area, confrence room, mobile workers, etc. 600 mobile staff, 600 fixed staff, lots of desk-sharing. 200 workplaces for the 600 workers, but lots of other areas to work on. There were no reservations for workplaces: first come first served. If you do desk-sharing there has to be enough space that no-one can't find somewhere and going home.
CE: Trend: 80% of meetings take less than 8 minutes. Shows slide: "when time spent reviewing a project with co-workers starts to feel more like good friends making plans and sharing stories, we'll know that effective workspaces have hit the mark". Talks about desk-sharing: you can theorise about it, people will get all sorts of "yeah but" reasons. Just try it, and give people the reason for doing it: not to save space or money, but to get people communicating better.
CE: People don't like moving furniture around.
Q: how do you stop people going to old habits, marking out their territory and keeping it?
CE: It happens. Over the years in Vienna we created a user guide, handbook and groundrules. You say "mobile desks are for everybody". The cleaners clean the desks completely - there's no paper kept around.
Q: But personalisation is everything?
CE: Every worker had their own storage area for filing, mobiles, etc. I didn't take away your desk, I gave you a bureau buffet. The whole floor is your office.
(I like bits about this, but confess to being cynical about it in its entirety for, say, a company like FP: though I can see the value in physically arranging project teams together)
Q: What about working from home?
CE: It brings up a series of issues. At DEC, Compaq, HP, and Cable & Wireless, we did not push home working. In the UK it's pushed to a high level because of commuting, traffic, and environmental impact of travel. In Geneva people don't have large houses, there's no space for it. What's the insurance impact of folks working at home? How do you stop people getting isolated or disconnected from their co-workers?
Q: How do you fight management resistance to not being able to see their staff?
CE: Through illustration and showing results.
Q: Trend: "the new R&D lab is the break area".
Q: Trend: "Ideas come from everywhere. Share what you can."
 Are there ways of improving an environment within existing physical structures?
CE: Yes: first thing, start with an open-door policy: leave doors open unless you're in a meeting. Drilling an "oculus" in doors so passers-by can see in if they need to and get visual feedback. "Management by walking around".
CE: Trend: "Walk away from noise and focus". People in Paris use speakerphone a great deal, for some reason - which is impolite and disrespectful, it's a source of distraction and so something which needs to be handled when creating the overall environment.
CE: Average work hours per day in the knowledge sector are now 9.1h. We have a need for privacy within this time and for general business dealings.
BREAK
CE: Dividers within offices should be low enough to see other folks' eyes - so you can see whether you can interact with others. (i.e. to allow glancing). Open space, visibility and interaction is what this is about - but different zones within an office area allow for privacy.
Q: How do you approach ergonomics?
CE: With adjustable desks and chair heights.
CE: What are the supposed benefits of open space? Communication, easy collaboration, easy knowledge sharing by osmosis. In Zurich, a bit objection to mobile working was "how will I find my boss"?
CE: What are the obstacles for collaboration?
Audience: Managers can use open space offices to get cheap space and do watch staff, which leads to a lack of innovation (err apparently - not sure I follow that, but maybe I'm one of those managers that loves stifling innovation ;)).
CE: Shows off Herman Miller offices in Bristol. Knoll+DEGW (architects) office in London. Shows off ludicrous tricycle desk.
Q&A follows. I mentioned our lovely Nabaztag CC plugin as a means of exposing virtual state physically.
CE: Chairs at desks are in use 35% of the time on average. Even fixed workers move around; that real estate isn't used 65% of the time.
CE: Stress is not caused by too much work, or buried fight-and-flight reflexes: it's about arbitrary decisions which aren't explained.


This is a series of calculations in which the density is varied, and the intensities of some [OII] lines relative to [OII] 3727 are printed. The plot shows two density-sensitive ratios.
The x-axis is the log of the electron density (cm-3) and the y-axis is the intensity of the line relative to [OII] 3727.
last modified 19 July, 2008


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spss_ascii_reader() and sas_ascii_reader() are used when you need to read an fixed-width ASCII (text) file that comes with a setup file. These file combinations are sometimes referred to as .txt+.sps, .txt+.sas, .dat+.sps, or .dat+.sas. The setup file provides instructions on how to create and name the columns, and fix the key-value pairs (sometimes called value labels). This is common in government data, particular data produced before 2010.
spss_ascii_reader( dataset_name, sps_name, value_label_fix = TRUE, real_names = TRUE, keep_columns = NULL, coerce_numeric = TRUE )
| dataset_name | Name of the ASCII (.txt) file that contains the data. This file may be zipped with a file extension of .zip. |
|---|---|
| sps_name | Name of the SPSS Setup file - should be a .sps or .txt (zipped text files also work) file. |
| value_label_fix | If TRUE, fixes value labels of the data. e.g. If a column is "sex" and has values of 0 or 1, and the setup file says 0 = male and 1 = female, it will make that change. The reader is much faster is this parameter is FALSE. |
| real_names | If TRUE fixes column names from default column name in the SPSS setup file (e.g. V1, V2) to the name is says the column is called (e.g. age, sex, etc.). |
| keep_columns | Specify which columns from the dataset you want. If NULL, will return all columns. Accepts the column number (e.g. 1:5), column name (e.g. V1, V2, etc.) or column label (e.g. VICTIM_NAME, CITY, etc.). |
| coerce_numeric | If TRUE (default) will make columns where all values can be made numeric into numeric columns.Useful as FALSE if variables have leading zeros - such as US Census FIPS codes. |
Data.frame of the data from the ASCII file
sas_ascii_reader
For using an SAS setup file
Other ASCII Reader functions:
sas_ascii_reader()
# Text file is zipped to save space. dataset_name <- system.file("extdata", "example_data.zip", package = "asciiSetupReader") sps_name <- system.file("extdata", "example_setup.sps", package = "asciiSetupReader") if (FALSE) { example <- spss_ascii_reader(dataset_name = dataset_name, sps_name = sps_name) # Does not fix value labels example2 <- spss_ascii_reader(dataset_name = dataset_name, sps_name = sps_name, value_label_fix = FALSE) # Keeps original column names example3 <- spss_ascii_reader(dataset_name = dataset_name, sps_name = sps_name, real_names = FALSE) } # Only returns the first 5 columns example4 <- spss_ascii_reader(dataset_name = dataset_name, sps_name = sps_name, keep_columns = 1:5)


Constructor
new CoreBadge()
Initialize private fields, shadowRoot and the view
- Source:
Members
content
The actual content to be displayed. It may be different from the given value because of max field.
- Source:
hidden
If the badge is displayed or not.
- Source:
isDot
If a little dot is displayed instead of the value
- Source:
max
The maximum number that can be put in the badge
If the value field is a number larger than max field, `${max}+` will be displayed in the badge
If the value field is a number larger than max field, `${max}+` will be displayed in the badge
- Source:
type
The type of the badge chosen from [primary, success, warning, info, danger]
- Source:
value
The content that the badge tries to display but may not be the same as the acutal displayed content
when the value is a number larger than max field.
- Source:
Methods
_updateTemplate()
Update the content of the transition element inside our template
- Source:


{% extends "base.html" %} {% block title %}Create your first web app with {{ block.super }}{% endblock %} {% block analytics %} analytics.page("Homepage"); {% endblock %} {% block bodyclass %}
{% endblock %} {% block content %}Not just a basic HTML & CSS website design,
but rather a complete functional web app with a database and user support.
Your side project. Your lifestyle business. Your future startup.
Hello Web App teaches the basics of web app programming using Python and Django. In less than 150 pages, you'll learn how to choose a project, set up a database, create your templates, and launch your app.
Released May 4th, 2015
Want to build your first web app? Hello Web App walks you through ideation to deployment of a super simple, easy web app. The project is easily customizable so you can create a web app that is unique to you.
Released December 7th, 2015
Learn how to add more advanced features to your app, such as customer payments, an API, user-uploaded images, multiple models, proper database design, and more. The perfect book for any beginner looking for the next step.
This is a fantastic guide for anyone who is not a developer and has an idea that they wish they could build. The format - “collection of things” - is incredibly flexible and gives you a fast and easy way to start “sketching” out your application without getting overwhelmed by a lot of technology.
After reading and working through this book, I had a functioning prototype of a fairly complex app within 3 weeks. It really does help in a concrete, practical way. And I love its optimism—the idea that you don’t have to spend years becoming a seasoned programmer to build an interactive web app that’s decent.
This is a fantastic introduction to the Django framework if you’re getting into it for the first time. It delicately balances introductory content and intermediary content in a way that doesn’t make you feel like you’re being talked down to or that the pacing is too slow.
Hi, I'm Tracy Osborn — designer, developer, and entreprenerd.
I taught myself how to code five years ago. As a visually oriented learner with no real previous experience with programming, I had a lot of problems with pre-existing tutorials and resources. Hello Web App is what I wish I had when I was learning — to the point, simple, down-to-earth introduction to building a web app.
Feel free to chat with me on Twitter (@limedaring) any time.
{% endcomment %}


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QAlgo. is an open souce project as an initiative to provide detailed information and explanation of qunatum algorithms and their implementations. QAlgo. aims to make the comprehention of quantum algorithms and their underlying principles easy and accessible to all. It is licensed under MIT Open Scource Lisence and is owned and maintained by amannirala13 and Platinocc.


AngularJS Application for simple project management.
Author @amitthk
Application uses authentication module created by Taiseer Joudeh. Twitter: @tjoudeh
If you have Username and Password, you can use the button below to access the secured content using a token.
Login »
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Should I go to the party?
Answer: [if(score > 0, Yes, if(score < 0, No, Maybe))]! (score: [sum(pro.weight) - sum(con.weight)])
[count(pro)] pro(s)
-
Fun with friends!
Weight:
[weight]
[count(con)] con(s)
-
I have tons of work to do.
Weight:
[weight]


--- layout: page title: About header-img: "img/about-bg.png" ---
Hi, I am Aniqa Elahi, A Full Stack Web Developer from Flatiron School, with a bachelors of Science in Computer Science and a passion to change how technology is impacting our younger generation. I would like to create tools that reconnect the younger generation with the older generation.


---
layout: post
title: pycasabadge is officially released you can find
date: '2008-07-02T19:07:00+02:00'
tags:
- pycasabadge
- picasa
- badge
- photos
- application
- software
- photo
- album
- albums
- photomadebyme
tumblr_url: http://blog.alezzandro.com/post/40714048/pycasabadge-is-officially-released-you-can-find
---
PycasaBadge is officially released!
You can find it at: http://pycasabadge.appspot.com
I’ve added a web form to help all users to create their own PycasaBadge!
You have only to write your Account Username and change the settings as you like (then click on ’Generate URL’ and ’Preview’ if you want to see the result) !
The source code will be released soon..
Stay Tuned!


Get in touch!
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*** User 2017-05-05 22:14:01.654 ***
22:14:01.654 [info] Disabling blocking sync...
*** User 2017-05-05 22:14:01.659 ***
22:14:01.659 [info] Configured peer_service_manager partisan_default_peer_service_manager on node 'node-1@MacBook-Pro-de-Anne-France'
*** User 2017-05-05 22:14:03.134 ***
22:14:03.134 [info] Enabling membership...
*** User 2017-05-05 22:14:03.135 ***
22:14:03.135 [info] Disabling blocking sync...
*** User 2017-05-05 22:14:03.140 ***
22:14:03.140 [info] Configured peer_service_manager partisan_default_peer_service_manager on node 'node-2@MacBook-Pro-de-Anne-France'
*** User 2017-05-05 22:14:04.626 ***
22:14:04.626 [info] Enabling membership...
*** User 2017-05-05 22:14:04.628 ***
22:14:04.628 [info] Disabling blocking sync...
*** User 2017-05-05 22:14:04.633 ***
22:14:04.633 [info] Configured peer_service_manager partisan_default_peer_service_manager on node 'node-3@MacBook-Pro-de-Anne-France'
*** User 2017-05-05 22:14:04.887 ***
Joining node: 'node-3@MacBook-Pro-de-Anne-France' to 'runner@MacBook-Pro-de-Anne-France' at port 54934
*** User 2017-05-05 22:14:04.887 ***
Joining issued: 'node-3@MacBook-Pro-de-Anne-France' to 'runner@MacBook-Pro-de-Anne-France' at port 54934
*** User 2017-05-05 22:14:04.887 ***
Joining node: 'node-2@MacBook-Pro-de-Anne-France' to 'runner@MacBook-Pro-de-Anne-France' at port 54917
*** User 2017-05-05 22:14:04.888 ***
Joining issued: 'node-2@MacBook-Pro-de-Anne-France' to 'runner@MacBook-Pro-de-Anne-France' at port 54917
*** User 2017-05-05 22:14:04.888 ***
Joining node: 'node-1@MacBook-Pro-de-Anne-France' to 'runner@MacBook-Pro-de-Anne-France' at port 54905
*** User 2017-05-05 22:14:04.889 ***
Joining issued: 'node-1@MacBook-Pro-de-Anne-France' to 'runner@MacBook-Pro-de-Anne-France' at port 54905
*** User 2017-05-05 22:14:04.950 ***
Waiting for join to complete with manager: partisan_default_peer_service_manager
*** User 2017-05-05 22:14:04.951 ***
Finished.
*** CT 2017-05-05 22:14:04.951 *** COVER INFO
Adding nodes to cover test: ['runner@MacBook-Pro-de-Anne-France']
*** CT 2017-05-05 22:14:04.960 *** COVER INFO
Successfully added nodes to cover test: []
*** User 2017-05-05 22:14:05.380 ***
Case finished: union_test
*** User 2017-05-05 22:14:12.437 ***
22:14:12.437 [info] Application lasp exited with reason: stopped
*** User 2017-05-05 22:14:12.437 ***
22:14:12.437 [info] Application partisan exited with reason: stopped
=== Ended at 2017-05-05 22:14:12
=== successfully completed test case
=== Returned value: ok
Test run history
| Top level test index


IOC Parser
Paste any data here and hit parse, you will find extracted indicator listed as IP, Mail, Hash, Domain and URL
Extracted IOCs
| Indicator | Type | |
|---|---|---|
| {{ value }} | IP | |
| {{ value }} | ||
| {{ value }} | Hash | |
| {{ value }} | Domain | |
| {{ value }} | URL |
Paste any data here and hit parse, you will find extracted indicator listed as IP, Mail, Hash, Domain and URL
| Indicator | Type | |
|---|---|---|
| {{ value }} | IP | |
| {{ value }} | ||
| {{ value }} | Hash | |
| {{ value }} | Domain | |
| {{ value }} | URL |


Modifications to any dependency of such a class may require changing the class thus making it prone to instability.
Only top-level classes are reported.
Use the Maximum number of transitive dependencies field to specify the maximum allowed number of direct or indirect dependencies for a class.
Available only from Code | Inspect Code or Code | Analyze Code | Run Inspection by Name and isn't reported in the editor.


I think the biggest problem facing the tech industry today has got to be a shortage of good coders. For every problem that someone is trying to solve with a new app or a new piece of programmable technology, I feel like we can all count at least 20 others that nobody has even found the time or resources to attack yet.
And for each 100 problems someone IS actively trying to solve with an app, the number of well-executed solutions is probably far less than 1.
This problem is twofold - an absence of good coders is both a shortage and an abundance. The shortage is obvious, of course - but the abundance is of not-good coders. An indutry that is hiring like crazy and pays well is calling people from all over to join in. Coding bootcamps are an obvious side effect of this - no other industry that I can think of is in such demand right now that firms would be willing to hire people who have 20 weeks of training for jobs that until very recently demanded at least a Bachelor's Degree!
Of course, that's good news for us, right? Plenty of opportunity for those clever and motivated enough to get into the industry while the getting is good.
I think it behooves us, however, to keep an eye on the two prongs of this problem - as more good coders enter the market, and as the market stabilizes, the ability for the not-so-good coder to keep reaping the benefits of this untenable situation will undoubtedly begin to wane.
Getting in fast is important - the window we're seeing will probably close (who can tell how soon?) - but if we can't get a grasp on the industry and learn to make ourselves the kind of coders that employers will want to keep around when it's time to trim the fat, getting in quickly isn't really enough to build a career out of this. We'll need staying power!
I'm quite curious, then, to get to know more people in this industry. I want to hear their complaints about their fellow developers. Which types of people are indispensable, and why? Which types will be the first against the wall? Let's get all the gossip...


Seamless for IOT can be observable in terms of progress.
| Nationality | Address | Phone | ||
|---|---|---|---|---|
| Greek | 1 Hippocratous Str. Athens 11472 |<EMAIL_ADDRESS>| +30<PHONE_NUMBER> | nikosdoulaveras |
IT and Privacy Project Consultant:
2018-06 - Currently
Communication and Digital Marketing:
2010-11 - 2018-05
Research Executive:
2007-07 - 2010-10
Account Executive Advertising Projects:
2004-05 - 2016-12
Computer Science:
2017
Political Communication and New Technologies:
2003
Communication and Mass Media:
2000
• CMS development (Wordpress, Joomla)
• Arduino automation
• project management
• GDPR Certification DPO
• English, Advanced
• German, Advanced
-Present proposals that are actionable -Project management -GDPR readiness -Security as a priviledge -HCI advancements
| Accomplishments | Hobbies | Web Development |
|---|---|---|
| ERMIS AWARDS 2004 HEINEKEN | trekking | joomla |
| EFFIE 2005 | arduino | wp |
| 1rst Social Media Study IE | guitar | custom templates |


Provide the world with the next level of hiring! We understand it as our duty to make the process as simple and effective as possible.
Accelerate innovation through optimizing human ressource allocation! We want t see the world blossom, and are providing one of the most important building blocks. Connecting talent to where it is needed most.
We believe in a better world through integrity, innovation, passion, excellence and hard work!


Hi, this is Sandy Duan! I'm a java and web developer,now living in china. I love reading and programming, write the code, maybe not change the world, but make this world better, even if only a little. This is my github , and if you are finding popover plugin, here is my another opensource plugin webui-popover.


Congrats!
You're successfully running JSON Server
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Those busy bees on the Core Team have a number of responsibilities to keep the hive that is BeeWare moving. This is an evolving project, so this page is subject to change.
These include, but aren't limited to, responding to issues, reviewing and merging code, mentoring new contributors, and architecture of the BeeWare project as a whole.
There are people we trust to make code decisions; there are people we trust to make code and organizational decisions; and there is a person who guides the vision of the whole organization, and is entrusted to make a final decision if the community cannot arrive at a consensus.
These levels can be described as follows:
- Bee, or Worker Bee:
- Any member of the BeeWare community. Given we work in the open on GitHub, anyone can suggest changes to the code and have their code merged. The only limit to your ability to contribute is having your work merged by a team member with the rights to do so.
- Apiarist:
- A bee who has been recognised as a trusted contributor. These bees have demonstrated ability in relation to a specific part of the BeeWare project over a period of time. This could be on a technical level (JavaScript, Python, Objective-C expertise; GTK+, macOS knowledge), or on another level (community management, code review). Apiarists may also have the commit bit for the project where their expertise is recognized.
- Senior Apiarists:
- Apiarists with elevated access in GitHub, and also an added level of responsibility to oversee the project as a whole. They are able to make architectural decisions, but ultimately answer to the BDFN.
- Founding Apiarist: Russell Keith-Magee
- The man that first stood on a hill and spied a yak that needed shaving
- This role never changes, and continues ad infinitum
- This role is different to the BDFN role
- Bee-nevolent Dictator for Now (BDFN): Russell Keith-Magee
- A take on Benevolent Dictator for Life, responsibility for the direction and decisions of the project ultimately lies with the BFDN. The use of "For Now" as opposed to "For Life" is reference to the Django theme of not subjecting the responsibilities of core maintainer for a person's entire natural life. Life exists outside open source, and code/life balance and general well-being is a very important thing to keep in mind.
Guidelines (not actual rules)
As with any project with more than one person with commit rights, there are a number of general guidelines that the team should follow:
- Be a good representation of the project to the wider community
- Treat every enquiry and contribution to any BeeWare project with respect.
- Assume everyone has good intentions, even if they haven't chosen their words well
- Assume that if someone has done something the "wrong" way, it's because we've failed in communicating process
- Assume any expression of anger or frustration comes from a genuine place of wanting to use a BeeWare tool/library
- Encourage other members of the community to reflect these ideals in their own communications, both inside and outside the BeeWare community
- No Apiarist should commit their own code
- Exception: "Something is very broken and needs to be fixed now"
- Exception: BDFN (this may change in the future)
- All code submitted for review by a core team member should be reviewed by another team member
- Exception: BDFN (this may change in the future)
- All code should pass Continuous Integration tests before being merged
- Exception: code that is known to be broken and needs to be committed for other reasons
- Exception: code in a repo with insufficient CI tests
- Exception: Working and committed is better than perfect and not
- Acceptance processes should be automated wherever possible
- This means tests, linting, spell checking, coverage, and more.
- This is now a proof of concept
Becoming an Apiarist
Introduction of a new Apiarist into the team is at the sole discretion of the existing Core Team. While there are not currently any solid rules to this, in general, someone will be invited to be an Apiarist on a BeeWare project if they have demonstrated solid contributions to the project. This can also be extended to someone with specific domain knowledge (for example, iOS/macOS) which might be lacking in the existing team. It also doesn't have to be based on commits. Anyone who is able to demonstrate a vested interest in the project in general may ask to be given permission to commit to the project.
All new apiarists will be 'inducted' (for lack of a better word) in the core values and guidelines of the project. A summary of the core values can be found on the about page. Anyone who joins the team will be expected to uphold those values, and contribute to discussions about evolving those values over time.
Any Apiarist, new or old, isn't expected to be the sole maintainer of any one thing. There are many apiarists, and many more beside who can offer help, advice and mentorship.


--- title: AlphaMap keywords: fastai sidebar: home_sidebar summary: "A python-based library that enables the exploration of proteomic datasets on the peptide level." description: "A python-based library that enables the exploration of proteomic datasets on the peptide level." nb_path: "nbs/index.ipynb" ---
AlphaMap is a tool for peptide level MS data exploration. You can load and inspect MS data analyzed by AlphaPept, DIA-NN, MaxQuant, Spectronaut or FragPipe. Uploaded data is processed and formatted for visual inspection of the sequence coverage of any selected protein and its identified post-translational modifications (PTMs). UniProt information is available to directly annotate sequence regions of interest such as protein domains, secondary structures, sequence variants, known PTMs, etc. Additionally, users can select proteases to further evaluate the distribution of proteolytic cleavage sites across a protein sequence. The functionality of AlphaMap can be accessed via an intuitive graphical user interface or - more flexibly - as a Python package that allows its integration into common analysis workflows for data visualization.
AlphaMap was developed by the Mann Labs at the Max Planck Institute of Biochemistry and is freely available with an Apache License.
AlphaMap can be installed and used on Windows and MacOS. There are three different types of installation possible:
The GUI of AlphaMap is a completely stand-alone tool that requires no knowledge of Python. Click on one of the links below to download the latest release for:
IMPORTANT: Please refer to the GUI manual for detailed instructions on the installation, troubleshooting and usage of the stand-alone AlphaMap GUI.
IMPORTANT: The one-click-installers on macOS and Windows require at least macOS Catalina (10.15) or higher and Windows 10 respectively. For Windows, a system update might be necessary in case older versions do not work. To prevent installation errors on Windows, we recommend uninstalling the previous AlphaMap version before installing a new one.
AlphaMap can be installed in an existing Python 3.8 environment with a single bash
command. This bash
command can also be run directly from within a Jupyter notebook by prepending it with a !
.
pip install alphamap
When a new version of AlphaMap becomes available, the old version can easily be upgraded by running e.g. the command again with an additional --upgrade
flag:
pip install alphamap --upgrade
NOTE: When installing with pip
, UniProt information is not included. Upon first usage of a specific Organism, its information will be automatically downloaded from UniProt.
AlphaMap can also be installed in editable (i.e. developer) mode with a few bash
commands. This allows to fully customize the software and even modify the source code to your specific needs. When an editable Python package is installed, its source code is stored in a transparent location of your choice. While optional, it is advised to first (create and) navigate to e.g. a general software folder:
mkdir ~/folder/where/to/install/software
cd ~/folder/where/to/install/software
Next, download the AlphaMap repository from GitHub either directly or with a git
command. This creates a new AlphaMap subfolder in your current directory.
git clone https://github.com/MannLabs/alphamap.git
cd alphamap
For any Python package, it is highly recommended to use a conda virtual environment. AlphaMap can either be installed in a new conda environment or in an already existing environment. Note that dependency conflicts can occur with already existing packages in the latter case! Once a conda environment is activated, AlphaMap and all its dependencies need to be installed.
conda create -n alphamap python=3.8 -y
conda activate alphamap
pip install -e .
By using the editable flag -e
, all modifications to the AlphaMap source code folder are directly reflected when running AlphaMap. Note that the AlphaMap folder cannot be moved and/or renamed if an editable version is installed.
When using Jupyter notebooks and multiple conda environments direcly from the terminal, it is recommended to conda install nb_conda_kernels
in the conda base environment. Hereafter, running a jupyter notebook
from the conda base environment should have a python [conda env: alphamap]
kernel available, in addition to all other conda kernels in which the command conda install ipykernel
was run.
AlphaMap has direct data import options for AlphaPept, DIA-NN, MaxQuant, Spectronaut and FragPipe.
AlphaMap takes the results.csv file from AlphaPept as input format. An example is available for download here.
AlphaMap takes the peptide-level output .tsv file from DIA-NN as input format. An example is available for download here.
AlphaMap takes the evidence.txt file from MaxQuant as input format. A reduced example file is available for download here.
AlphaMap takes Spectronaut results exported in normal long format (.csv or .tsv) as input. Necessary columns include:
To ensure proper formatting of the Spectronaut output, an export scheme is available for download here.
A reduced example file is also available for download here.
There are two options to visualize data analyzed by FragPipe: 1) Upload individual "peptide.tsv" files for single MS runs. A reduced example file is available for download here.
2) Upload the "combined_peptide.tsv" file with the joint information about peptides identified in all runs (there is an option to select the experiment(s)). Be aware that the combined_peptide.tsv does not provide information about PTM localization. PTMs are therefore not shown for this option. A reduced example file is available for download here.
There are two ways to use AlphaMap:
NOTE: The first time you use a fresh installation of AlphaMap, it is often quite slow because some functions might still need compilation on your local operating system and architecture. Subsequent use should be a lot faster.
Please refer to the GUI manual for detailed instructions on the installation and usage of the stand-alone AlphaMap GUI.
If the GUI was not installed through a one-click GUI installer, it can be activated with the following bash
command:
alphamap
Note that this needs to be prepended with a !
when you want to run this from within a Jupyter notebook. When the command is run directly from the command-line, make sure you use the right environment (activate it with e.g. conda activate alphamap
or set an alias to the binary executable).
AlphaMap can be imported as a Python package into any Python script or notebook with the command import alphamap
.
A Jupyter notebook tutorial 'Workflow.ipynb' is available to demonstrate how to load AlphaMap as python module and hot to visualize data interactively. When running locally it provides interactive plots, which are not rendered on GitHub.
AlphaMap includes fasta files and UniProt annotations for: 'Human', 'Mouse', 'Rat', 'Cow', 'Zebrafish', 'Drosophila', 'Caenorhabditis elegans', 'Slime mold', 'Arabidopsis thaliana', 'Rice', 'Escherichia coli', 'Bacillus subtilis', 'Saccharomyces cerevisiae', 'SARS-COV' and 'SARS-COV-2'. If additional organisms are of interest, corresponding .fasta files and sequence annotations can be downloaded directly from UniProt. A Jupyter notebook tutorial 'Uniprot_preprocessing.ipynb' shows how to load and format a UniProt annotation file.