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roblanf / sangeranalyseR

functions to analyse sanger sequencing reads in R
MIT License
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Unavailable external font resource #68

Open pbpearman opened 3 years ago

pbpearman commented 3 years ago

I have been using SangerAlignment(), launchApp() and generateReport() all afternoon. Suddenly I started getting the following error, which appears to indicate that an external resource is not available:

generateReport(primer_6_contigs, outputDir = './primer_pair_6')

....a lot of standard knitr output as before.... (followed by)

pandoc: Could not fetch https://pro.fontawesome.com/releases/v5.10.0/css/../webfonts/fa-regular-400.eot FailedConnectionException2 "pro.fontawesome.com" 443 True sendBuf: resource vanished (Broken pipe) Error: pandoc document conversion failed with error 67

I have tried closing and restarting RStudio,and loading the library again. In any case, code that was functioning 15 minutes ago now produces this error. Is this really a failure to connect to an external resource, or does it only look that way? If so, it would be great if generateReport() were not vulnerable to the whims of other websites. Is this really the issue, or is something else going on? How can I determine that?

--Peter

pbpearman commented 3 years ago

On the following day, I was able to successfully generate reports using the same data and code. Upon running a third attempt, again the same error as above was displayed. I suspected that the website may be tracking external users with the user's IP address. I exited RStudio and used a VPN to connect to a university network, then started RStudio and re-ran the code. The code that had failed three minutes before completed successfully. If the fontawesome site is blocking users, or imposing a quota limit, due to the demand generated by generateReport(), it would be useful to find a different way to meet font requirements that arise during report generation.

roblanf commented 3 years ago

Hi Peter,

Wow, thanks for this update. Definitely something we'll have to look into. Howard - I guess there should be ways that we can package up all the fonts we need inside our package, and avoid attempts to download fonts?

Though it seems odd to me (naively) that the package would want to keep downloading the fonts over and over. I'm ignorant as to how that part works though.

Rob

On Tue, 20 Apr 2021 at 23:16, Peter B. Pearman @.***> wrote:

On the following day, I was able to successfully generate reports using the same data and code. Upon running a third attempt, again the same error as above was displayed. I suspected that the website may be tracking external users with the user's IP address. I exited RStudio and used a VPN to connect to a university network, then started RStudio and re-ran the code. The code that had failed three minutes before completed successfully. If the fontawesome site is blocking users due to the demand generated by generateReport(), it would be useful to find a different way to meet font requirements that arise during report generation.

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