Expand independence-assumption diagnostics in linear regression with mathematical details and worked examples by Copilot · Pull Request #563 · d-morrison/rme

Copilot · 2026-04-18T00:48:09Z

Review new PR comment and confirm required change scope
Inspect current CI/workflow status and failure logs via GitHub MCP
Locate and apply thm-variant div usage in the relevant diagnostics content
Run local validation (lintr on changed files, spelling, full quarto render)
Run final parallel validation
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Agent-Logs-Url: https://github.com/d-morrison/rme/sessions/77f22306-4128-4852-8346-93455180c8bb Co-authored-by: d-morrison <2474437+d-morrison@users.noreply.github.com>

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Copilot

Pull request overview

This PR expands the linear regression diagnostics chapter by adding a dedicated section on diagnosing violations of the independence assumption, with supporting mathematical details and a worked, reproducible example.

Changes:

Added a new “Diagnostics for the independence assumption” subsection to the linear regression diagnostics content.
Introduced two new subfiles: one for Durbin–Watson / Breusch–Godfrey math details and one for simulated AR(1) example diagnostics (plots + formal tests).
Added four new bibliography entries to support the new discussion.

Reviewed changes

Copilot reviewed 4 out of 4 changed files in this pull request and generated 3 comments.

File	Description
`references.bib`	Adds new reference entries for cited regression-independence diagnostics resources.
`_subfiles/Linear-models-overview/_sec_linreg_independence_math.qmd`	Adds formulas and hypothesis framing for Durbin–Watson and Breusch–Godfrey.
`_subfiles/Linear-models-overview/_sec_linreg_independence_examples.qmd`	Adds a simulated AR(1) example with residual-order plot, ACF/PACF, and `lmtest` outputs.
`_subfiles/Linear-models-overview/_sec_linreg_diagnostics.qmd`	Integrates the new independence diagnostics section and includes the new subfiles.

Agent-Logs-Url: https://github.com/d-morrison/rme/sessions/66346382-6b8d-4b3b-8ec2-71de2d6d2c90 Co-authored-by: d-morrison <2474437+d-morrison@users.noreply.github.com>

Copilot · 2026-04-18T23:36:51Z

also include examples with real data sets, in addition to the simulated data examples

Added in 8143f6e: I included real-data examples alongside the simulated one, using Nile and co2 with code and output for dwtest()/bgtest(), plus a residual-vs-order plot for Nile. Screenshot: N/A (documentation/code-only change; no UI screen to capture in this environment).

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If you need me to access, download, or install something from one of these locations, you can either:

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d-morrison

let's cite peer-reviewed articles or published textbooks, not wikipedia, as primary sources. we can refer readers to wikipedia for more information though.

d-morrison · 2026-04-18T23:38:43Z

@copilot apply changes based on the comments in this thread

Agent-Logs-Url: https://github.com/d-morrison/rme/sessions/e54eadb3-a6c1-44ac-a1b5-e645fdfc17ed Co-authored-by: d-morrison <2474437+d-morrison@users.noreply.github.com>

Copilot · 2026-04-18T23:55:31Z

let's cite peer-reviewed articles or published textbooks, not wikipedia, as primary sources. we can refer readers to wikipedia for more information though.

Updated in f6b5e5f: I replaced the new Wikipedia-based primary citations with textbook sources in the diagnostics section and removed the four new wp:* bibliography entries. Screenshot: N/A (documentation/citation-only change; no UI change to capture).

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www.google.com
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=11070 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.gwPBNc --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,7202101708476647626,9081136421987766842,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,10528296280543058225,6893912017171224396,4 --trace-process-track-uuid=3190708989122997041 (dns block)
- Triggering command: /opt/google/chrome/chrome /usr/bin/google-chrome --headless --remote-debugging-port=46027 --remote-allow-origins=REDACTED --crash-dumps-dir=/tmp/RtmpjxVLgP/chrome-2afc4f5b4587-crashpad --no-sandbox --disable-dev-shm-usage --force-color-profile=srgb --disable-extensions --mute-audio (dns block)

If you need me to access, download, or install something from one of these locations, you can either:

Configure Actions setup steps to set up my environment, which run before the firewall is enabled
Add the appropriate URLs or hosts to the custom allowlist in this repository's Copilot coding agent settings (admins only)

Agent-Logs-Url: https://github.com/d-morrison/rme/sessions/8530f689-5c1f-420b-805b-a3dfc5943256 Co-authored-by: d-morrison <2474437+d-morrison@users.noreply.github.com>

Copilot · 2026-04-19T00:29:14Z

@copilot apply changes based on the comments in this thread

Applied in d98ff69. I implemented the remaining linked review-thread edits: clarified the independence-assumption wording to refer to model errors (with residual-based diagnostics), and wrapped the ACF/PACF chunk in local({ ... }) to keep graphics state scoped. Screenshot: N/A (documentation/code-only change; no UI change to capture).

Warning

Firewall rules blocked me from connecting to one or more addresses (expand for details)

I tried to connect to the following addresses, but was blocked by firewall rules:

accounts.google.com
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=11079 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.WupoVt --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,18174927340614113970,12395059983576566071,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,2981611863987598347,12154276479405462282,4 --trace-process-track-uuid=3190708989122997041 (dns block)
- Triggering command: /opt/google/chrome/chrome /usr/bin/google-chrome --headless --remote-debugging-port=8684 --remote-allow-origins=REDACTED --crash-dumps-dir=/tmp/Rtmp66KtSs/chrome-2b0536581712-crashpad --no-sandbox --disable-dev-shm-usage --force-color-profile=srgb --disable-extensions --mute-audio (dns block)
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=13902 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.zZwyzN --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,16575042117503374895,7930266251112398005,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,13781644348520256550,17727492088125743873,4 --trace-process-track-uuid=3190708989122997041 (dns block)
android.clients.google.com
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=11079 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.WupoVt --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,18174927340614113970,12395059983576566071,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,2981611863987598347,12154276479405462282,4 --trace-process-track-uuid=3190708989122997041 (dns block)
- Triggering command: /opt/google/chrome/chrome /usr/bin/google-chrome --headless --remote-debugging-port=8684 --remote-allow-origins=REDACTED --crash-dumps-dir=/tmp/Rtmp66KtSs/chrome-2b0536581712-crashpad --no-sandbox --disable-dev-shm-usage --force-color-profile=srgb --disable-extensions --mute-audio (dns block)
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=13902 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.zZwyzN --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,16575042117503374895,7930266251112398005,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,13781644348520256550,17727492088125743873,4 --trace-process-track-uuid=3190708989122997041 (dns block)
clients2.google.com
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=11079 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.WupoVt --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,18174927340614113970,12395059983576566071,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,2981611863987598347,12154276479405462282,4 --trace-process-track-uuid=3190708989122997041 (dns block)
- Triggering command: /opt/google/chrome/chrome /usr/bin/google-chrome --headless --remote-debugging-port=8684 --remote-allow-origins=REDACTED --crash-dumps-dir=/tmp/Rtmp66KtSs/chrome-2b0536581712-crashpad --no-sandbox --disable-dev-shm-usage --force-color-profile=srgb --disable-extensions --mute-audio (dns block)
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=13902 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.zZwyzN --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,16575042117503374895,7930266251112398005,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,13781644348520256550,17727492088125743873,4 --trace-process-track-uuid=3190708989122997041 (dns block)
clientservices.googleapis.com
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=11079 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.WupoVt --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,18174927340614113970,12395059983576566071,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,2981611863987598347,12154276479405462282,4 --trace-process-track-uuid=3190708989122997041 (dns block)
- Triggering command: /opt/google/chrome/chrome /usr/bin/google-chrome --headless --remote-debugging-port=8684 --remote-allow-origins=REDACTED --crash-dumps-dir=/tmp/Rtmp66KtSs/chrome-2b0536581712-crashpad --no-sandbox --disable-dev-shm-usage --force-color-profile=srgb --disable-extensions --mute-audio (dns block)
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=13902 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.zZwyzN --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,16575042117503374895,7930266251112398005,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,13781644348520256550,17727492088125743873,4 --trace-process-track-uuid=3190708989122997041 (dns block)
ehar.se
- Triggering command: /opt/R/4.5.3/lib/R/bin/exec/R /opt/R/4.5.3/lib/R/bin/exec/R --no-echo --no-restore --file=/opt/quarto/share/rmd/rmd.R nyTe�� (dns block)
- Triggering command: /opt/R/4.5.3/lib/R/bin/exec/R /opt/R/4.5.3/lib/R/bin/exec/R --no-echo --no-restore --file=/opt/quarto/share/rmd/rmd.R 74f1�� --connect-timeout renv-script-30d61b031efb.sh /tmp/RtmpGMw1wY/renv-script-384e130f6102.sh (dns block)
optimizationguide-pa.googleapis.com
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=11079 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.WupoVt --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,18174927340614113970,12395059983576566071,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,2981611863987598347,12154276479405462282,4 --trace-process-track-uuid=3190708989122997041 (dns block)
- Triggering command: /opt/google/chrome/chrome /usr/bin/google-chrome --headless --remote-debugging-port=8684 --remote-allow-origins=REDACTED --crash-dumps-dir=/tmp/Rtmp66KtSs/chrome-2b0536581712-crashpad --no-sandbox --disable-dev-shm-usage --force-color-profile=srgb --disable-extensions --mute-audio (dns block)
redirector.gvt1.com
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=11079 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.WupoVt --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,18174927340614113970,12395059983576566071,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,2981611863987598347,12154276479405462282,4 --trace-process-track-uuid=3190708989122997041 (dns block)
- Triggering command: /opt/google/chrome/chrome /usr/bin/google-chrome --headless --remote-debugging-port=8684 --remote-allow-origins=REDACTED --crash-dumps-dir=/tmp/Rtmp66KtSs/chrome-2b0536581712-crashpad --no-sandbox --disable-dev-shm-usage --force-color-profile=srgb --disable-extensions --mute-audio (dns block)
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=13902 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.zZwyzN --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,16575042117503374895,7930266251112398005,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,13781644348520256550,17727492088125743873,4 --trace-process-track-uuid=3190708989122997041 (dns block)
safebrowsingohttpgateway.googleapis.com
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=11079 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.WupoVt --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,18174927340614113970,12395059983576566071,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,2981611863987598347,12154276479405462282,4 --trace-process-track-uuid=3190708989122997041 (dns block)
- Triggering command: /opt/google/chrome/chrome /usr/bin/google-chrome --headless --remote-debugging-port=8684 --remote-allow-origins=REDACTED --crash-dumps-dir=/tmp/Rtmp66KtSs/chrome-2b0536581712-crashpad --no-sandbox --disable-dev-shm-usage --force-color-profile=srgb --disable-extensions --mute-audio (dns block)
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=13902 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.zZwyzN --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,16575042117503374895,7930266251112398005,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,13781644348520256550,17727492088125743873,4 --trace-process-track-uuid=3190708989122997041 (dns block)
www.google.com
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=11079 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.WupoVt --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,18174927340614113970,12395059983576566071,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,2981611863987598347,12154276479405462282,4 --trace-process-track-uuid=3190708989122997041 (dns block)
- Triggering command: /opt/google/chrome/chrome /usr/bin/google-chrome --headless --remote-debugging-port=8684 --remote-allow-origins=REDACTED --crash-dumps-dir=/tmp/Rtmp66KtSs/chrome-2b0536581712-crashpad --no-sandbox --disable-dev-shm-usage --force-color-profile=srgb --disable-extensions --mute-audio (dns block)
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=13902 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.zZwyzN --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,16575042117503374895,7930266251112398005,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,13781644348520256550,17727492088125743873,4 --trace-process-track-uuid=3190708989122997041 (dns block)

If you need me to access, download, or install something from one of these locations, you can either:

Configure Actions setup steps to set up my environment, which run before the firewall is enabled
Add the appropriate URLs or hosts to the custom allowlist in this repository's Copilot coding agent settings (admins only)

github-actions · 2026-04-19T00:58:46Z

PR Preview Action v1.8.1
🚀 Preview available at: https://d-morrison.github.io/rme/pr-preview/pr-563/

_{Built to branch gh-pages at 2026-04-19 00:58 UTC.}

d-morrison · 2026-04-20T07:27:39Z

@copilot use thm-variant divs

Agent-Logs-Url: https://github.com/d-morrison/rme/sessions/af609840-ccc3-42e1-b230-46a09d70378b Co-authored-by: d-morrison <2474437+d-morrison@users.noreply.github.com>

Copilot · 2026-04-20T07:55:32Z

@copilot use thm-variant divs

Implemented in 26c428f. I updated the independence-diagnostics additions to use thm-variant style fenced divs (#def-/#exm-) with #### titles for the common diagnostics block, both math-test blocks, and the simulated/real-data example blocks. Screenshot: N/A (documentation-only change; no UI change to capture).

Warning

Firewall rules blocked me from connecting to one or more addresses (expand for details)

I tried to connect to the following addresses, but was blocked by firewall rules:

accounts.google.com
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=11102 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.9Jh14C --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,13754097210731980795,12953506056334412643,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,7989850416898337033,13323008940314768065,4 --trace-process-track-uuid=3190708989122997041 (dns block)
- Triggering command: /opt/google/chrome/chrome /usr/bin/google-chrome --headless --remote-debugging-port=48052 --remote-allow-origins=REDACTED --crash-dumps-dir=/tmp/Rtmpw8dRG6/chrome-2b1eb07bd83-crashpad --no-sandbox --disable-dev-shm-usage --force-color-profile=srgb --disable-extensions --mute-audio (dns block)
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=13848 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.RH7MeE --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,16898157213173883551,13500074974143571749,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,12713475884621200741,17661289008720534517,4 --trace-process-track-uuid=3190708989122997041 (dns block)
android.clients.google.com
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=11102 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.9Jh14C --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,13754097210731980795,12953506056334412643,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,7989850416898337033,13323008940314768065,4 --trace-process-track-uuid=3190708989122997041 (dns block)
- Triggering command: /opt/google/chrome/chrome /usr/bin/google-chrome --headless --remote-debugging-port=48052 --remote-allow-origins=REDACTED --crash-dumps-dir=/tmp/Rtmpw8dRG6/chrome-2b1eb07bd83-crashpad --no-sandbox --disable-dev-shm-usage --force-color-profile=srgb --disable-extensions --mute-audio (dns block)
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=13848 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.RH7MeE --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,16898157213173883551,13500074974143571749,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,12713475884621200741,17661289008720534517,4 --trace-process-track-uuid=3190708989122997041 (dns block)
clients2.google.com
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=11102 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.9Jh14C --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,13754097210731980795,12953506056334412643,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,7989850416898337033,13323008940314768065,4 --trace-process-track-uuid=3190708989122997041 (dns block)
- Triggering command: /opt/google/chrome/chrome /usr/bin/google-chrome --headless --remote-debugging-port=48052 --remote-allow-origins=REDACTED --crash-dumps-dir=/tmp/Rtmpw8dRG6/chrome-2b1eb07bd83-crashpad --no-sandbox --disable-dev-shm-usage --force-color-profile=srgb --disable-extensions --mute-audio (dns block)
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=13848 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.RH7MeE --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,16898157213173883551,13500074974143571749,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,12713475884621200741,17661289008720534517,4 --trace-process-track-uuid=3190708989122997041 (dns block)
clientservices.googleapis.com
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=11102 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.9Jh14C --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,13754097210731980795,12953506056334412643,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,7989850416898337033,13323008940314768065,4 --trace-process-track-uuid=3190708989122997041 (dns block)
- Triggering command: /opt/google/chrome/chrome /usr/bin/google-chrome --headless --remote-debugging-port=48052 --remote-allow-origins=REDACTED --crash-dumps-dir=/tmp/Rtmpw8dRG6/chrome-2b1eb07bd83-crashpad --no-sandbox --disable-dev-shm-usage --force-color-profile=srgb --disable-extensions --mute-audio (dns block)
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=13848 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.RH7MeE --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,16898157213173883551,13500074974143571749,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,12713475884621200741,17661289008720534517,4 --trace-process-track-uuid=3190708989122997041 (dns block)
ehar.se
- Triggering command: /opt/R/4.5.3/lib/R/bin/exec/R /opt/R/4.5.3/lib/R/bin/exec/R --no-echo --no-restore --file=/opt/quarto/share/rmd/rmd.R --64�� -o /tmp/cg9CWqPN/dummy.o /home/REDACTED/.TinyTeX/bin/x86_64-linux/kpseaccess 6924.tar google-chrome/Cr--vanilla t kpseaccess -w /home/REDACTED/.TinyTeX/texmf-config/ls-R /dev/null nyTeX/bin/x86_64-linux/kpsewhich gyOdVzpRkT mit.edu/CTAN/sys/tmp/RtmpG4Gv0d/renv-script-34b5374fc408.sh (dns block)
optimizationguide-pa.googleapis.com
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=11102 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.9Jh14C --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,13754097210731980795,12953506056334412643,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,7989850416898337033,13323008940314768065,4 --trace-process-track-uuid=3190708989122997041 (dns block)
- Triggering command: /opt/google/chrome/chrome /usr/bin/google-chrome --headless --remote-debugging-port=48052 --remote-allow-origins=REDACTED --crash-dumps-dir=/tmp/Rtmpw8dRG6/chrome-2b1eb07bd83-crashpad --no-sandbox --disable-dev-shm-usage --force-color-profile=srgb --disable-extensions --mute-audio (dns block)
redirector.gvt1.com
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=11102 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.9Jh14C --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,13754097210731980795,12953506056334412643,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,7989850416898337033,13323008940314768065,4 --trace-process-track-uuid=3190708989122997041 (dns block)
- Triggering command: /opt/google/chrome/chrome /usr/bin/google-chrome --headless --remote-debugging-port=48052 --remote-allow-origins=REDACTED --crash-dumps-dir=/tmp/Rtmpw8dRG6/chrome-2b1eb07bd83-crashpad --no-sandbox --disable-dev-shm-usage --force-color-profile=srgb --disable-extensions --mute-audio (dns block)
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=13848 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.RH7MeE --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,16898157213173883551,13500074974143571749,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,12713475884621200741,17661289008720534517,4 --trace-process-track-uuid=3190708989122997041 (dns block)
safebrowsingohttpgateway.googleapis.com
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=11102 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.9Jh14C --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,13754097210731980795,12953506056334412643,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,7989850416898337033,13323008940314768065,4 --trace-process-track-uuid=3190708989122997041 (dns block)
- Triggering command: /opt/google/chrome/chrome /usr/bin/google-chrome --headless --remote-debugging-port=48052 --remote-allow-origins=REDACTED --crash-dumps-dir=/tmp/Rtmpw8dRG6/chrome-2b1eb07bd83-crashpad --no-sandbox --disable-dev-shm-usage --force-color-profile=srgb --disable-extensions --mute-audio (dns block)
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=13848 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.RH7MeE --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,16898157213173883551,13500074974143571749,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,12713475884621200741,17661289008720534517,4 --trace-process-track-uuid=3190708989122997041 (dns block)
www.google.com
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=11102 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.9Jh14C --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,13754097210731980795,12953506056334412643,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,7989850416898337033,13323008940314768065,4 --trace-process-track-uuid=3190708989122997041 (dns block)
- Triggering command: /opt/google/chrome/chrome /usr/bin/google-chrome --headless --remote-debugging-port=48052 --remote-allow-origins=REDACTED --crash-dumps-dir=/tmp/Rtmpw8dRG6/chrome-2b1eb07bd83-crashpad --no-sandbox --disable-dev-shm-usage --force-color-profile=srgb --disable-extensions --mute-audio (dns block)
- Triggering command: /proc/self/exe /proc/self/exe --type=utility --utility-sub-type=network.mojom.NetworkService --lang=en-US --service-sandbox-type=none --no-sandbox --disable-dev-shm-usage --use-angle=swiftshader-webgl --mute-audio --crashpad-handler-pid=13848 --enable-crash-reporter=, --noerrdialogs --user-data-dir=/tmp/com.google.Chrome.scoped_dir.RH7MeE --change-stack-guard-on-fork=enable --shared-files=v8_context_snapshot_data:100 --field-trial-handle=3,i,16898157213173883551,13500074974143571749,262144 --disable-features=PaintHolding --variations-seed-version --pseudonymization-salt-handle=7,i,12713475884621200741,17661289008720534517,4 --trace-process-track-uuid=3190708989122997041 (dns block)

If you need me to access, download, or install something from one of these locations, you can either:

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Add the appropriate URLs or hosts to the custom allowlist in this repository's Copilot coding agent settings (admins only)

Initial plan

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Copilot AI assigned Copilot and d-morrison Apr 18, 2026

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Copilot AI linked an issue Apr 18, 2026 that may be closed by this pull request

add a section on diagnostics for the independence assumption in linear regression #562

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docs: add independence diagnostics section for linear regression

d3b27d3

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Copilot AI changed the title ~~[WIP] Add section on diagnostics for independence assumption in linear regression~~ Add independence-assumption diagnostics section to linear regression diagnostics Apr 18, 2026

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Comment thread _subfiles/Linear-models-overview/_sec_linreg_diagnostics.qmd

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docs: add independence diagnostics math and worked examples

67607dd

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docs: use subfiles for independence test math and examples

5969608

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docs: clarify AR error notation and dependent-example naming

360d4eb

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docs: tighten independence diagnostics explanations

017b84a

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docs: make correlogram par reset robust

3661078

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Comment thread references.bib Outdated

Comment thread _subfiles/Linear-models-overview/_sec_linreg_diagnostics.qmd Outdated

Comment thread _subfiles/Linear-models-overview/_sec_linreg_independence_examples.qmd Outdated

docs: add real-data independence diagnostics examples

8143f6e

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docs: replace wikipedia primary citations with textbook sources

f6b5e5f

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docs: apply remaining review-thread fixes for independence diagnostics

d98ff69

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docs: use theorem-variant divs in independence diagnostics section

26c428f

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