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COMBINE-Australia / 2015-05-27-SWC-MCRI

http://combine-australia.github.io/2015-05-27-SWC-MCRI/
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Add to R install instructions: required R packages and data #1

Open hdashnow opened 9 years ago

hdashnow commented 9 years ago

Hey @claresloggett and @sritchie73,

Here's the SWC page for MCRI. We may have some potential for dodgy WIFI during the workshop. MCRI WIFI blocks some random stuff and has some proxy weirdness, so installing R packages can be a pain. So I thought we could put install instructions for the packages need for students to do at home.

I also forked r-novice-gapminder just in case they start doing major edits on it. I've invited you to have edit access. It's here: https://github.com/COMBINE-Australia/r-novice-gapminder-2015-05-27-MCRI

Harriet

sritchie73 commented 9 years ago

As a work around solution, I've created a mini CRAN repository on github. Let me know if this doesn't work for you:

install.packages("ggplot2", repos="http://sritchie73.github.io/drat/")

It has the packages "ggplot2", "plyr", "packrat", "ProjectTemplate", and "gapminder" (as a backup if data downloading and read.table fails) and their dependencies.

hdashnow commented 9 years ago

install.packages("ggplot2", repos="http://sritchie73.github.io/drat/")

Warning: unable to access index for repository http://sritchie73.github.io/drat/src/contrib http://sritchie73.github.io/drat/src/contrib

Warning: unable to access index for repository http://sritchie73.github.io/drat/bin/macosx/mavericks/contrib/3.2 http://sritchie73.github.io/drat/bin/macosx/mavericks/contrib/3.2

Warning message:

package ‘ggplot2’ is not available (for R version 3.2.0)

On Mon, May 25, 2015 at 3:16 PM, Scott Ritchie notifications@github.com wrote:

As a work around solution, I've created a mini CRAN repository on github. Let me know if this doesn't work for you:

install.packages("ggplot2", repos="http://sritchie73.github.io/drat/")

It has the packages "ggplot2", "plyr", "packrat", "ProjectTemplate", and "gapminder" (as a backup if data downloading and read.table fails) and their dependencies.

— Reply to this email directly or view it on GitHub https://github.com/COMBINE-Australia/2015-05-27-SWC-MCRI/issues/1#issuecomment-105128323 .

Harriet Dashnow BSc, BA, MSc (Bioinformatics), PhD candidate au.linkedin.com/in/hdashnow

sritchie73 commented 9 years ago

wait hang on, try this:

install.packages("ggplot2", repos="http://sritchie73.github.io/miniCRAN/")

I forgot i changed the repo name

hdashnow commented 9 years ago

Nope, the URL doesn't work. Can't see it on my browser either.

On Mon, May 25, 2015 at 3:35 PM, Scott Ritchie notifications@github.com wrote:

wait hang on, try this:

install.packages("ggplot2", repos="http://sritchie73.github.io/miniCRAN/")

I forgot i changed the repo name

— Reply to this email directly or view it on GitHub https://github.com/COMBINE-Australia/2015-05-27-SWC-MCRI/issues/1#issuecomment-105131670 .

Harriet Dashnow BSc, BA, MSc (Bioinformatics), PhD candidate au.linkedin.com/in/hdashnow

sritchie73 commented 9 years ago

Hmmm.... You shouldn't be able to see it on your browser (no index.html), but the command should work (at least it does on my machine and an external server).

hdashnow commented 9 years ago

Okay, it's the MCRI proxy then. Just tried it from my phone and it's okay.

We will have a backup 4G wifi router that approx 10 people can connect to if we just need to install a few people.

On Mon, May 25, 2015 at 3:43 PM, Scott Ritchie notifications@github.com wrote:

Hmmm.... You shouldn't be able to see it on your browser (no index.html), but the command should work (at least it does on my machine and an external server).

— Reply to this email directly or view it on GitHub https://github.com/COMBINE-Australia/2015-05-27-SWC-MCRI/issues/1#issuecomment-105132575 .

Harriet Dashnow BSc, BA, MSc (Bioinformatics), PhD candidate au.linkedin.com/in/hdashnow

sritchie73 commented 9 years ago

Damn, I thought this would solve the MCRI proxy issues :( It's weird they can access github but not gh-pages branches...

hdashnow commented 9 years ago

Is it extremely odd. I don't really understand enough about networking to know what's going on...

On Mon, May 25, 2015 at 3:50 PM, Scott Ritchie notifications@github.com wrote:

Damn, I thought this would solve the MCRI proxy issues :( It's weird they can access github but not gh-pages branches...

— Reply to this email directly or view it on GitHub https://github.com/COMBINE-Australia/2015-05-27-SWC-MCRI/issues/1#issuecomment-105133759 .

Harriet Dashnow BSc, BA, MSc (Bioinformatics), PhD candidate au.linkedin.com/in/hdashnow

sritchie73 commented 9 years ago

I can put the repository on a USB stick if you'd like? Although there's risk of cross-computer infection between attendees if one of them has a virus.

hdashnow commented 9 years ago

Yes please!

On Mon, May 25, 2015 at 3:55 PM, Scott Ritchie notifications@github.com wrote:

I can put the repository on a USB stick if you'd like? Although there's risk of cross-computer infection between attendees if one of them has a virus.

— Reply to this email directly or view it on GitHub https://github.com/COMBINE-Australia/2015-05-27-SWC-MCRI/issues/1#issuecomment-105135308 .

Harriet Dashnow BSc, BA, MSc (Bioinformatics), PhD candidate au.linkedin.com/in/hdashnow