Hi David,

That's interesting to see the output of Rlabkey being seen in addition to the rendered results, despite you adding the echo=false option.

Let me get this looked at further. It may be that there needs to be another flag enabled.

Thanks for your patience.

Regards,

Jon

Hi, I have the same problem. How did you solve it? Thanks.

The issue ended up being a problem in the LabKey server when there were multiple R scripts referencing each other (i.e. in that case the outer script's prolog was the one being displayed in the PDF report). There was an issue opened for release 16.3 for this issue and has since been resolved with r48647:
https://www.labkey.org/home/Developer/issues/issues-details.view?issueId=28946
-Cory

Hi Cory!
I am trying to convert my R report to a .docx file and have the same problem. My report begins like this...

---
title: "Reporte Final"
author: "hgrieve"
output:
  word_document: "Reporte Final Filiación.docx"
---

```{r setup, echo=FALSE, cache=TRUE, results='hide', warning=FALSE, comment=FALSE, warning=FALSE, message=FALSE, encoding = 'UTF-8',comments = ""}
knitr::opts_chunk$set(echo=FALSE, cache=TRUE, comment=FALSE, comments = "", warning=FALSE, eval = TRUE, encoding = "native.enc")
#knitr::opts_chunk$get();
knitr::pandoc('script.Rmd', format='docx')
```

and I get the docx file like the image I attached.
Can you help me? thanks!

Are your R scripts being run as R Reports within your LabKey server, or are you running the R script on a separate session and reading data from your LabKey server? Also, what version of LabKey are you using? The fix for the original issue in the thread was checked in to the 16.3 release of LabKey server, so if your issue is the same, you would need to get the 16.3 release version later than r48647 to have the fix.
-Cory

Hi Cori, I am using the 16.2 version. So, I will upgrade labkey Server version and try again with this report.
But, my scripts is running like an R report with my Labkey Server. I select some data, make a table, and I am taking the data from this table to complete the R markdown-Pandoc report.

I need this report to generate a word document, so then it can be modified.

Thanks, I will comunicate if the new version doesn't solve my problem.

Hilaria

Hi Hilaria,

Let's separate this install problem from the rest of this thread. This will create less confusion.

Regards,

Jon