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| Our depression outcomes are stored on a separate local database. | ||
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| ```{r depression model} | ||
| data2 <- read_csv("~/Documents/GIT/psypres/MDMAPTSD/data/data.csv") # for parker |
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This chunk hard-codes a user-specific absolute path (~/Documents/GIT/psypres/...) for the depression dataset, so knitting fails with a file-not-found error on any machine that does not mirror that local filesystem layout. Because the depression model depends on this file, the reproducibility guide cannot be rerun by other contributors or CI in its current form.
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| The primary meta-analysis on continuous outcomes in the 6 studies included in the main model showed a statistically significant reduction in PTSD scores with MDMA treatment as compared to control conditions, with small between-study heterogeneity. | ||
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| ```{r main continuous forest plot for indesign, include=FALSE} | ||
| quartz(type = "pdf", file = file.path(basedir, "analysis/mdmaptsd/paperfigs/fig2_mdmaptsd.pdf"), width = 14.3, height = 4.76) |
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Using quartz() makes rendering platform-dependent: on Linux/Windows, this call errors because the Quartz device is unavailable, and knitting stops at the first export chunk. Since this file is intended as a reproducible analysis workflow, the current device choice blocks execution for non-macOS environments.
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Make sure to merge #60 first!