From 478af5050c3f57726354b41686c620fbe0435ebd Mon Sep 17 00:00:00 2001 From: GitHub Actions Date: Mon, 18 Sep 2023 15:52:28 +0000 Subject: [PATCH] differences for PR #138 --- 04-collaboration.md | 4 ++-- 05-project_organization.md | 34 ++++++++++++++++++---------------- md5sum.txt | 4 ++-- 3 files changed, 22 insertions(+), 20 deletions(-) diff --git a/04-collaboration.md b/04-collaboration.md index c2480204..21409383 100644 --- a/04-collaboration.md +++ b/04-collaboration.md @@ -32,7 +32,7 @@ they know *what* to contribute, and make the contribution process clear so that they know *how* to contribute. You also want to make it easy for people to give you credit for your work. -:::::::::::::::::::::::::::::::::::::: discussion +:::::::::::::::::::::::::::::::::::::: challenge ## Collaboration opportunities and challenges @@ -42,7 +42,7 @@ Discussion - What goes wrong with collaboration? - How can you prepare to collaborate? -::::::::::::::: solution +::::::::::::::::: solution ## Suggestions diff --git a/05-project_organization.md b/05-project_organization.md index d7333f51..fe103d21 100644 --- a/05-project_organization.md +++ b/05-project_organization.md @@ -249,8 +249,6 @@ For your information, to encode experimental details the following conventions w - measurement date - other details are timepoint and raw or normalized data -::::::::::::::: solution - ``` 2020-07-14_s12_phyB_on_SD_t04.raw.csv 2020-07-14_s1_phyA_on_LD_t05.raw.csv @@ -272,8 +270,6 @@ SD_phya_ons_t04_2020-07-12.norm.csv ld_phyA_ons_t04_2020-08-12.norm.csv ``` -::::::::::::::::::::::::: - - What are the problems with having the date first? - How do different date formats behave once sorted? - Can you tell the importance of a leading 0 (zeros)? @@ -282,21 +278,27 @@ ld_phyA_ons_t04_2020-08-12.norm.csv - Do you see benefits of keeping consistent lengths of the naming conventions? - Do you see what happens when you mix conventions? -> ## Solution -> -> - Using dates up front makes it difficult to quickly find data for -> particular conditions or genotypes. It also masks the "logical" order of samples -> or timepoints. -> - Named months break the "expected" sorting, same as dates without leading 0 -> - Without leading zeros, 's12' appear before s1 and s2 -> - the first (and second) part of the name are easiest to spot -> - the last file is also from LD conditions, but appears after SD, same with 'phya' genotypes -> - the last 3 file names are easiest to read as all parts appear on top of each other -> due to the same 3 letter-length codes ons and off -> - The lack of consistency makes it very difficult to get data from related samples/conditions. +::::::::::::::::::::::::: solution + + + +## Solution + + - Using dates up front makes it difficult to quickly find data for + particular conditions or genotypes. It also masks the "logical" order of samples + or timepoints. + - Named months break the "expected" sorting, same as dates without leading 0 + - Without leading zeros, 's12' appear before s1 and s2 + - the first (and second) part of the name are easiest to spot + - the last file is also from LD conditions, but appears after SD, same with 'phya' genotypes + - the last 3 file names are easiest to read as all parts appear on top of each other + due to the same 3 letter-length codes ons and off + - The lack of consistency makes it very difficult to get data from related samples/conditions. :::::::::::::::::::::::::::::::::::::::::::::::::: +::::::::::::::::::::::::::: + ::::::::::::::::::::::::::::::::::::::::: callout ## Some helpful organisation tools diff --git a/md5sum.txt b/md5sum.txt index cd9a4f41..95c4505d 100644 --- a/md5sum.txt +++ b/md5sum.txt @@ -7,8 +7,8 @@ "episodes/01-introduction.md" "20db3572b403389eccd97c3425717354" "site/built/01-introduction.md" "2023-08-31" "episodes/02-data_management.md" "ec17a220df1259ef60ed84f8fbffd3b2" "site/built/02-data_management.md" "2023-09-07" "episodes/03-software.md" "7dc30bc0c113045c390ba3c8e4fcbf94" "site/built/03-software.md" "2023-08-31" -"episodes/04-collaboration.md" "848baa2446adb0473073b8340b59c121" "site/built/04-collaboration.md" "2023-08-31" -"episodes/05-project_organization.md" "f49ce7c3a31770ddb6d5a969ac4fc5a7" "site/built/05-project_organization.md" "2023-08-31" +"episodes/04-collaboration.md" "55f160010b664f8f10c3f8d688461468" "site/built/04-collaboration.md" "2023-09-18" +"episodes/05-project_organization.md" "8c2311609009a28b64107e732622ac22" "site/built/05-project_organization.md" "2023-09-18" "episodes/06-track_changes.md" "b02e8243730f0192d4418b6843fc72e0" "site/built/06-track_changes.md" "2023-09-07" "episodes/07-manuscripts.md" "cd54d77e18d0e00bdd0ad41343e461ad" "site/built/07-manuscripts.md" "2023-08-31" "episodes/08-what_next.md" "d7f89e1953957185712810e48661387a" "site/built/08-what_next.md" "2023-08-31"