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cgrandin avatar cgrandin commented on August 16, 2024 2

Should be!

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grinnellm avatar grinnellm commented on August 16, 2024 1

Thanks Chris. I just found and fixed an error in all.bib (my bad) -- fetch from me to make the refs work.

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cgrandin avatar cgrandin commented on August 16, 2024

I'm working on it. It's going to take a long time to debug this as the build process takes so long

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cgrandin avatar cgrandin commented on August 16, 2024

There was a quote mark that was somehow deleted in the figures section so I've fixed that but there is another error in the introduction.

Anytime I write latex sections, I always comment out all the other sections in res-doc.rnw so that I can test it more quickly.

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grinnellm avatar grinnellm commented on August 16, 2024

Nice. I'll give it a shot. Are the citations coming in too?

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jaclyncleary avatar jaclyncleary commented on August 16, 2024

no citations coming in :(

and I just deleted my comment because I've got M-sensitivities but not q-prior ones - but enough to keep working on the text!

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cgrandin avatar cgrandin commented on August 16, 2024

It appears that we can't use \cite{} in Miktex but you can on the mac. So I've changed all of them to \citet{} and am building now. There was a bunch of them in the introduction.

Hopefully that was all. Then I'll get back to doing the q sensitivity plots

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grinnellm avatar grinnellm commented on August 16, 2024

Did you source "ResearchDocumentV2.R" after copying the q-prior sensitivities, to put the *.csv's in the /mcmc? Then build().

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cgrandin avatar cgrandin commented on August 16, 2024

I did, yes

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grinnellm avatar grinnellm commented on August 16, 2024

Oops, I meant Jaclyn.

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jaclyncleary avatar jaclyncleary commented on August 16, 2024

@cgrandin
I just merged with you- what was the error in the intro I was making, so that I don't make it again?

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cgrandin avatar cgrandin commented on August 16, 2024

Use \citet instead of \cite

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cgrandin avatar cgrandin commented on August 16, 2024

But I haven't pushed the changes yet, and it's still breaking somewhere else

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jaclyncleary avatar jaclyncleary commented on August 16, 2024

ok

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cgrandin avatar cgrandin commented on August 16, 2024

Ok, it's all fixed in commit f5a0ca2.

I guess we can't have the >% operator inside an \Sexpr{}. That also broke it.

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grinnellm avatar grinnellm commented on August 16, 2024

Ah, dang it -- did I mess it up?
I fetched and merged, and then fixed some merge conflicts in the intro. Now I get this error when I try to compile:
Error in readLines(if (is.character(input2)) { :
I ran delete.rdata.files() and build() but I still get the same error.

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Shawkshaw avatar Shawkshaw commented on August 16, 2024

I was getting this error before I merged with you...I think?

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cgrandin avatar cgrandin commented on August 16, 2024

Do you have it working now Matt?

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grinnellm avatar grinnellm commented on August 16, 2024

Took me a while to get up to date and fix the merge conflicts. I think we're all working on the same sections. No, still the same error.

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jaclyncleary avatar jaclyncleary commented on August 16, 2024

Although last night I was able to build the pdf, I can't now.

When I run, library(knitr);knit('./res-doc.rnw') I get:
Quitting from lines 113-113 (./maindoc/test.rnw)
Error in readLines(if (is.character(input2)) { :
cannot open the connection
In addition: Warning message:
In readLines(if (is.character(input2)) { :
cannot open file './maindoc/test.rnw': No such file or directory

And when I compile PDF from res-doc.rnw, I get:
Line 113: Error in readLines(if (is.character(input2)) { :

(this is all after running fresh.sh)

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grinnellm avatar grinnellm commented on August 16, 2024

What is maindoc/test.rnw? I don't have that file either.

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cgrandin avatar cgrandin commented on August 16, 2024

test.rnw is a file I have locally, I use it to put plot or table code in, then I comment out every other section so that it builds really quick. It's just a way of making sure I haven't broken anything before I put the code in the document. It should have been commented out when I committed but if it wasn't my apologies.

I'm trying again now, and will debug again. So far today has been basically a debug session. I'm staying later today also.

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cgrandin avatar cgrandin commented on August 16, 2024

There were more /cite{} commands in the intro that I had to change to /citet{} again. The doc builds for me on commit 911bd78

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jaclyncleary avatar jaclyncleary commented on August 16, 2024

so if I fetch from you I should be good?

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