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create mode 100644 pagefind/fragment/en-us_cd7bf45.pf_fragment create mode 100644 pagefind/fragment/en-us_d794d81.pf_fragment delete mode 100644 pagefind/fragment/en-us_dd6491e.pf_fragment delete mode 100644 pagefind/fragment/en-us_e4ec563.pf_fragment delete mode 100644 pagefind/fragment/en-us_e7e970c.pf_fragment delete mode 100644 pagefind/fragment/en-us_e822917.pf_fragment delete mode 100644 pagefind/fragment/en-us_ea784cd.pf_fragment delete mode 100644 pagefind/fragment/en-us_efc2868.pf_fragment delete mode 100644 pagefind/fragment/en-us_f3f3ac9.pf_fragment create mode 100644 pagefind/fragment/en-us_f4a0573.pf_fragment create mode 100644 pagefind/fragment/en-us_f66aee5.pf_fragment delete mode 100644 pagefind/fragment/en-us_f7e74f2.pf_fragment delete mode 100644 pagefind/fragment/en-us_fa8ae96.pf_fragment delete mode 100644 pagefind/fragment/en-us_fb72f78.pf_fragment rename pagefind/fragment/{en-us_3e0c59c.pf_fragment => en-us_fced5d8.pf_fragment} (92%) delete mode 100644 pagefind/fragment/en-us_fd26f04.pf_fragment delete mode 100644 pagefind/index/en-us_36b6722.pf_index create mode 100644 pagefind/index/en-us_c458f02.pf_index delete mode 100644 pagefind/pagefind.en-us_941444c562fdb.pf_meta create mode 100644 pagefind/pagefind.en-us_f0ffe9b7848fe.pf_meta diff --git a/docs/guides/contribute_slide-decks-example.html b/docs/guides/contribute_slide-decks-example.html index fe88dbf07..c8ef7c860 100644 --- a/docs/guides/contribute_slide-decks-example.html +++ b/docs/guides/contribute_slide-decks-example.html @@ -155,13 +155,13 @@

Align content in center

align all content

some content

-

+

center align image (Incorrect)

-

+

Note, this will also center all images on the slide (including those in the footer)!

@@ -170,14 +170,14 @@

center align image (Incorrect)

center align image (Not perfect, but better)

-

+

I am a footer

Crop an image

E.g. a figure coming from what used to be a slide with header/footer

-

+

I am a footer
@@ -188,7 +188,7 @@

Omitting footer from individual

Add caption to figure to right side of image

- +
This is the caption This is the caption This is the caption This is the caption This is the caption
I am a footer
@@ -196,7 +196,7 @@

Add caption to figure to r

to bottom of image

- +
This is the caption This is the caption This is the caption This is the caption This is the caption
I am a footer
@@ -219,7 +219,7 @@

Image with caption right, bul
- +
This is the caption This is the caption This is the caption This is the caption This is the caption
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-https://nfdi4plants.org/nfdi4plants.knowledgebase/docs/img/_logos/CreativeCommons/by-nc-nd.eu.svg +./img/logos/CreativeCommons/by-nc-nd.eu.svg +https://nfdi4plants.org/nfdi4plants.knowledgebase/docs/img/logos/CreativeCommons/by-nc-nd.eu.svg https://creativecommons.org/ -./img/_logos/CreativeCommons/by-nc-nd.svg -https://nfdi4plants.org/nfdi4plants.knowledgebase/docs/img/_logos/CreativeCommons/by-nc-nd.svg +./img/logos/CreativeCommons/by-nc-nd.svg +https://nfdi4plants.org/nfdi4plants.knowledgebase/docs/img/logos/CreativeCommons/by-nc-nd.svg https://creativecommons.org/ -./img/_logos/CreativeCommons/by-nc-sa.eu.svg -https://nfdi4plants.org/nfdi4plants.knowledgebase/docs/img/_logos/CreativeCommons/by-nc-sa.eu.svg +./img/logos/CreativeCommons/by-nc-sa.eu.svg +https://nfdi4plants.org/nfdi4plants.knowledgebase/docs/img/logos/CreativeCommons/by-nc-sa.eu.svg https://creativecommons.org/ -./img/_logos/CreativeCommons/by-nc-sa.svg 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docs/img/_qr-codes/QR_DataPLANT_KnowledgeBase_001.svg rename to docs/img/qr-codes/QR_DataPLANT_KnowledgeBase_001.svg diff --git a/docs/img/_qr-codes/QR_DataPLANT_Linktree.svg b/docs/img/qr-codes/QR_DataPLANT_Linktree.svg similarity index 100% rename from docs/img/_qr-codes/QR_DataPLANT_Linktree.svg rename to docs/img/qr-codes/QR_DataPLANT_Linktree.svg diff --git a/docs/teaching-materials/_maintenance/slide-gallery.html b/docs/teaching-materials/_maintenance/slide-gallery.html index f3f3b98dc..4c17328e4 100644 --- a/docs/teaching-materials/_maintenance/slide-gallery.html +++ b/docs/teaching-materials/_maintenance/slide-gallery.html @@ -520,137 +520,137 @@

last updated at 2023-05-12 ARC_ISA -

Dominik Brilhaus, Martin Kuhl, DataPLANT, CEPLAS, +

Dominik Brilhaus, Martin Kuhl, DataPLANT, CEPLAS, 2022-10-24 ✏️ Edit me

SwateTemplates -

Martin Kuhl, DataPLANT, +

Martin Kuhl, DataPLANT, 2022-10-25 ✏️ Edit me

exercise_FAIRProject_ARC -

Dominik Brilhaus, DataPLANT, CEPLAS, +

Dominik Brilhaus, DataPLANT, CEPLAS, 2023-03-16 ✏️ Edit me

exercise_FAIRProject_SWATE -

Dominik Brilhaus, DataPLANT, CEPLAS, +

Dominik Brilhaus, DataPLANT, CEPLAS, 2023-03-16 ✏️ Edit me

exercise_FAIRProject_final -

Dominik Brilhaus, DataPLANT, CEPLAS, +

Dominik Brilhaus, DataPLANT, CEPLAS, 2023-03-16 ✏️ Edit me

lesson_022_ARC_structure_DataPLANT -

Cristina Martins Rodrigues, DataPLANT, +

Cristina Martins Rodrigues, DataPLANT, 2023-02-17 ✏️ Edit me

lesson_DataHUB -

Dominik Brilhaus, DataPLANT, CEPLAS, +

Dominik Brilhaus, DataPLANT, CEPLAS, 2023-03-16 ✏️ Edit me

lesson_ResearchDataLifecycle -

Dominik Brilhaus, Martin Kuhl, DataPLANT, CEPLAS, +

Dominik Brilhaus, Martin Kuhl, DataPLANT, CEPLAS, 2023-03-07 ✏️ Edit me

lesson_SchemataStandards -

Dominik Brilhaus, DataPLANT, CEPLAS, +

Dominik Brilhaus, DataPLANT, CEPLAS, 2022-11-10 ✏️ Edit me

lesson_Swate_DataPLANT -

Martin Kuhl, DataPLANT, +

Martin Kuhl, DataPLANT, 2023-03-16 ✏️ Edit me

lesson_fair-intro -

Dominik Brilhaus, DataPLANT, CEPLAS, +

Dominik Brilhaus, DataPLANT, CEPLAS, 2022-10-11 ✏️ Edit me

lesson_fair_outro -

Dominik Brilhaus, DataPLANT, CEPLAS, +

Dominik Brilhaus, DataPLANT, CEPLAS, 2023-03-16 ✏️ Edit me

lesson_ontology -

Dominik Brilhaus, DataPLANT, CEPLAS, +

Dominik Brilhaus, DataPLANT, CEPLAS, 2023-03-16 ✏️ Edit me

lesson_repositories -

Dominik Brilhaus, DataPLANT, CEPLAS, +

Dominik Brilhaus, DataPLANT, CEPLAS, 2023-03-16 ✏️ Edit me

lesson_reproducibility -

Dominik Brilhaus, DataPLANT, CEPLAS, +

Dominik Brilhaus, DataPLANT, CEPLAS, 2023-03-16 ✏️ Edit me

promotion_001_DataPLANT-Overview -

Cristina Martins Rodrigues, DataPLANT, +

Cristina Martins Rodrigues, DataPLANT, 2023-03-24 ✏️ Edit me

First steps towards your ARC -

Dominik Brilhaus, DataPLANT, CEPLAS, +

Dominik Brilhaus, DataPLANT, CEPLAS, 2023-02-02 ✏️ Edit me

promotion_elabFTW-ARC -

Dominik Brilhaus, DataPLANT, CEPLAS, +

Dominik Brilhaus, DataPLANT, CEPLAS, 2023-04-13 ✏️ Edit me

promotion_fileshare2arc -

Dominik Brilhaus, DataPLANT, CEPLAS, +

Dominik Brilhaus, DataPLANT, CEPLAS, 2023-03-29 ✏️ Edit me

tutorial_IntroCLI -

Dominik Brilhaus, DataPLANT, CEPLAS, +

Dominik Brilhaus, DataPLANT, CEPLAS, 2023-03-16 ✏️ Edit me

tutorial_arc_access -

Martin Kuhl, Dominik Brilhaus, DataPLANT, CEPLAS, +

Martin Kuhl, Dominik Brilhaus, DataPLANT, CEPLAS, 2023-03-16 ✏️ Edit me

tutorial_arc_add -

Martin Kuhl, DataPLANT, +

Martin Kuhl, DataPLANT, 2023-03-16 ✏️ Edit me

tutorial_arc_sync -

Martin Kuhl, Dominik Brilhaus, DataPLANT, CEPLAS, +

Martin Kuhl, Dominik Brilhaus, DataPLANT, CEPLAS, 2023-03-16 ✏️ Edit me

tutorial_datahub_PAT -

Dominik Brilhaus, DataPLANT, CEPLAS, +

Dominik Brilhaus, DataPLANT, CEPLAS, 2023-03-16 ✏️ Edit me

tutorial_datahub_PAT_add -

Dominik Brilhaus, DataPLANT, CEPLAS, +

Dominik Brilhaus, DataPLANT, CEPLAS, 2023-03-16 ✏️ Edit me

tutorial_datahub_PAT_check -

Dominik Brilhaus, DataPLANT, CEPLAS, +

Dominik Brilhaus, DataPLANT, CEPLAS, 2023-03-16 ✏️ Edit me

tutorial_swate_firstSteps -

Martin Kuhl, DataPLANT, +

Martin Kuhl, DataPLANT, 2023-03-16 ✏️ Edit me

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dl dd{margin-bottom:16px;padding:0 16px}div#p>svg>foreignObject>section table th{font-weight:var(--base-text-weight-semibold,600)}div#p>svg>foreignObject>section table td,div#p>svg>foreignObject>section table th{border:1px solid var(--color-border-default);padding:6px 13px}div#p>svg>foreignObject>section table tr{background-color:var(--color-canvas-default);border-top:1px solid var(--color-border-muted)}div#p>svg>foreignObject>section table tr:nth-child(2n){background-color:var(--color-canvas-subtle)}div#p>svg>foreignObject>section table img{background-color:transparent}div#p>svg>foreignObject>section img[align=right]{padding-left:20px}div#p>svg>foreignObject>section img[align=left]{padding-right:20px}div#p>svg>foreignObject>section .emoji{background-color:transparent;max-width:none;vertical-align:text-top}div#p>svg>foreignObject>section :is(span,marp-span).frame,div#p>svg>foreignObject>section 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tt{word-wrap:normal;background-color:transparent;border:0;display:inline;line-height:inherit;margin:0;max-width:auto;overflow:visible;padding:0}div#p>svg>foreignObject>section .csv-data td,div#p>svg>foreignObject>section .csv-data th{font-size:12px;line-height:1;overflow:hidden;padding:5px;text-align:left;white-space:nowrap}div#p>svg>foreignObject>section .csv-data .blob-num{background:var(--color-canvas-default);border:0;padding:10px 8px 9px;text-align:right}div#p>svg>foreignObject>section .csv-data tr{border-top:0}div#p>svg>foreignObject>section .csv-data th{background:var(--color-canvas-subtle);border-top:0;font-weight:var(--base-text-weight-semibold,600)}div#p>svg>foreignObject>section [data-footnote-ref]:before{content:"["}div#p>svg>foreignObject>section [data-footnote-ref]:after{content:"]"}div#p>svg>foreignObject>section .footnotes{border-top:1px solid var(--color-border-default);color:var(--color-fg-muted);font-size:12px}div#p>svg>foreignObject>section 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.pl-md{background-color:var(--color-prettylights-syntax-markup-deleted-bg);color:var(--color-prettylights-syntax-markup-deleted-text)}div#p>svg>foreignObject>section .pl-mi1{background-color:var(--color-prettylights-syntax-markup-inserted-bg);color:var(--color-prettylights-syntax-markup-inserted-text)}div#p>svg>foreignObject>section .pl-mc{background-color:var(--color-prettylights-syntax-markup-changed-bg);color:var(--color-prettylights-syntax-markup-changed-text)}div#p>svg>foreignObject>section .pl-mi2{background-color:var(--color-prettylights-syntax-markup-ignored-bg);color:var(--color-prettylights-syntax-markup-ignored-text)}div#p>svg>foreignObject>section .pl-mdr{color:var(--color-prettylights-syntax-meta-diff-range);font-weight:700}div#p>svg>foreignObject>section .pl-ba{color:var(--color-prettylights-syntax-brackethighlighter-angle)}div#p>svg>foreignObject>section .pl-sg{color:var(--color-prettylights-syntax-sublimelinter-gutter-mark)}div#p>svg>foreignObject>section .pl-corl{color:var(--color-prettylights-syntax-constant-other-reference-link);text-decoration:underline}div#p>svg>foreignObject>section g-emoji{display:inline-block;font-family:Apple Color Emoji,Segoe UI Emoji,Segoe UI Symbol;font-size:1em;font-style:normal!important;font-weight:var(--base-text-weight-normal,400);line-height:1;min-width:1ch;vertical-align:-.075em}div#p>svg>foreignObject>section g-emoji img{height:1em;width:1em}div#p>svg>foreignObject>section .task-list-item{list-style-type:none}div#p>svg>foreignObject>section .task-list-item label{font-weight:var(--base-text-weight-normal,400)}div#p>svg>foreignObject>section .task-list-item.enabled label{cursor:pointer}div#p>svg>foreignObject>section .task-list-item+.task-list-item{margin-top:4px}div#p>svg>foreignObject>section .task-list-item .handle{display:none}div#p>svg>foreignObject>section .task-list-item-checkbox{margin:0 .2em .25em -1.4em;vertical-align:middle}div#p>svg>foreignObject>section .contains-task-list:dir(rtl) .task-list-item-checkbox{margin:0 -1.6em .25em .2em}div#p>svg>foreignObject>section .contains-task-list{position:relative}div#p>svg>foreignObject>section .contains-task-list:focus-within .task-list-item-convert-container,div#p>svg>foreignObject>section .contains-task-list:hover .task-list-item-convert-container{clip:auto;display:block;height:24px;overflow:visible;width:auto}div#p>svg>foreignObject>section ::-webkit-calendar-picker-indicator{filter:invert(50%)}div#p>svg>foreignObject>section :is(h1,marp-h1){color:var(--h1-color);font-size:1.6em}div#p>svg>foreignObject>section :is(h1,marp-h1),div#p>svg>foreignObject>section :is(h2,marp-h2){border-bottom:none}div#p>svg>foreignObject>section :is(h2,marp-h2){font-size:1.3em}div#p>svg>foreignObject>section :is(h3,marp-h3){font-size:1.1em}div#p>svg>foreignObject>section :is(h4,marp-h4){font-size:1.05em}div#p>svg>foreignObject>section :is(h5,marp-h5){font-size:1em}div#p>svg>foreignObject>section :is(h6,marp-h6){font-size:.9em}div#p>svg>foreignObject>section :is(h1,marp-h1) strong,div#p>svg>foreignObject>section :is(h2,marp-h2) strong,div#p>svg>foreignObject>section :is(h3,marp-h3) strong,div#p>svg>foreignObject>section :is(h4,marp-h4) strong,div#p>svg>foreignObject>section :is(h5,marp-h5) strong,div#p>svg>foreignObject>section :is(h6,marp-h6) strong{color:var(--heading-strong-color);font-weight:inherit}div#p>svg>foreignObject>section :is(h1,marp-h1)::part(auto-scaling),div#p>svg>foreignObject>section :is(h2,marp-h2)::part(auto-scaling),div#p>svg>foreignObject>section :is(h3,marp-h3)::part(auto-scaling),div#p>svg>foreignObject>section :is(h4,marp-h4)::part(auto-scaling),div#p>svg>foreignObject>section :is(h5,marp-h5)::part(auto-scaling),div#p>svg>foreignObject>section :is(h6,marp-h6)::part(auto-scaling){max-height:563px}div#p>svg>foreignObject>section hr{height:0;padding-top:.25em}div#p>svg>foreignObject>section :is(pre,marp-pre){border:1px solid var(--color-border-default);line-height:1.15;overflow:visible}div#p>svg>foreignObject>section :is(pre,marp-pre)::part(auto-scaling){max-height:529px}div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs){color:var(--color-prettylights-syntax-storage-modifier-import)}div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-doctag),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-keyword),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-meta .hljs-keyword),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-template-tag),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-template-variable),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-type),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-variable.language_){color:var(--color-prettylights-syntax-keyword)}div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-title),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-title.class_),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-title.class_.inherited__),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-title.function_){color:var(--color-prettylights-syntax-entity)}div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-attr),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-attribute),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-literal),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-meta),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-number),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-operator),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-selector-attr),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-selector-class),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-selector-id),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-variable){color:var(--color-prettylights-syntax-constant)}div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-meta .hljs-string),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-regexp),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-string){color:var(--color-prettylights-syntax-string)}div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-built_in),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-symbol){color:var(--color-prettylights-syntax-variable)}div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-code),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-comment),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-formula){color:var(--color-prettylights-syntax-comment)}div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-name),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-quote),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-selector-pseudo),div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-selector-tag){color:var(--color-prettylights-syntax-entity-tag)}div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-subst){color:var(--color-prettylights-syntax-storage-modifier-import)}div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-section){color:var(--color-prettylights-syntax-markup-heading);font-weight:700}div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-bullet){color:var(--color-prettylights-syntax-markup-list)}div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-emphasis){color:var(--color-prettylights-syntax-markup-italic);font-style:italic}div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-strong){color:var(--color-prettylights-syntax-markup-bold);font-weight:700}div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-addition){background-color:var(--color-prettylights-syntax-markup-inserted-bg);color:var(--color-prettylights-syntax-markup-inserted-text)}div#p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-deletion){background-color:var(--color-prettylights-syntax-markup-deleted-bg);color:var(--color-prettylights-syntax-markup-deleted-text)}div#p>svg>foreignObject>section footer,div#p>svg>foreignObject>section header{color:var(--header-footer-color);font-size:18px;left:30px;margin:0;position:absolute}div#p>svg>foreignObject>section header{top:21px}div#p>svg>foreignObject>section footer{bottom:21px}div#p>svg>foreignObject>section{--h1-color:#246;--header-footer-color:hsla(0,0%,40%,.75);--heading-strong-color:#48c;--paginate-color:#777;align-items:stretch;display:flex;flex-flow:column nowrap;font-size:29px;height:720px;justify-content:center;padding:78.5px;width:1280px}div#p>svg>foreignObject>section{--marpit-root-font-size:29px}div#p>svg>foreignObject>section:where(.invert){--h1-color:#cee7ff;--header-footer-color:hsla(0,0%,60%,.75);--heading-strong-color:#7bf;--paginate-color:#999}div#p>svg>foreignObject>section>:last-child,div#p>svg>foreignObject>section[data-footer]>:nth-last-child(2){margin-bottom:0}div#p>svg>foreignObject>section>:first-child,div#p>svg>foreignObject>section>header:first-child+*{margin-top:0}div#p>svg>foreignObject>section:after{bottom:21px;color:var(--paginate-color);font-size:24px;padding:0;position:absolute;right:30px}div#p>svg>foreignObject>section:after{--marpit-root-font-size:24px}div#p>svg>foreignObject>section[data-color] :is(h1,marp-h1),div#p>svg>foreignObject>section[data-color] :is(h2,marp-h2),div#p>svg>foreignObject>section[data-color] :is(h3,marp-h3),div#p>svg>foreignObject>section[data-color] :is(h4,marp-h4),div#p>svg>foreignObject>section[data-color] :is(h5,marp-h5),div#p>svg>foreignObject>section[data-color] :is(h6,marp-h6){color:currentcolor}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]{columns:initial!important;display:block!important;padding:0!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:before,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:before{display:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]{all:initial;display:flex;flex-direction:row;height:100%;overflow:hidden;width:100%}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container][data-marpit-advanced-background-direction=vertical]{flex-direction:column}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split]>div[data-marpit-advanced-background-container]{width:var(--marpit-advanced-background-split,50%)}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split=right]>div[data-marpit-advanced-background-container]{margin-left:calc(100% - var(--marpit-advanced-background-split, 50%))}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]>figure{all:initial;background-position:center;background-repeat:no-repeat;background-size:cover;flex:auto;margin:0}div#p>svg>foreignObject>section[data-marpit-advanced-background=content],div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo]{background:transparent!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo],div#p>svg[data-marpit-svg]>foreignObject[data-marpit-advanced-background=pseudo]{pointer-events:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background-split]{width:100%;height:100%}

-

+

FAIR research in your hands

diff --git a/docs/teaching-materials/bricks/DataPLANT-Links.html b/docs/teaching-materials/bricks/DataPLANT-Links.html index e85c35603..8615a6a92 100644 --- a/docs/teaching-materials/bricks/DataPLANT-Links.html +++ b/docs/teaching-materials/bricks/DataPLANT-Links.html @@ -33,7 +33,7 @@




-

+

Title slide to class

Source to slide(s)

../custom/bricks/ceplas-title-01.md

Source to slide(s)

../custom/bricks/ceplas-dataplant-collab.md

Source to slide(s)

../../bricks/ARC_DataCentricIntegration.md

Source to slide(s)

../../bricks/ARC_Structure_DataPLANT-1Folder_Structure.md

Source to slide(s)

../../bricks/ARC_Structure_DataPLANT-2Folder_Structure_ExperimentalData.md

Source to slide(s)

../../bricks/ARC_Structure_DataPLANT-3Folder_Structure_ExperimentalData_Images.md

Source to slide(s)

../../bricks/ARC_Structure_DataPLANT-4Folder_Structure_DataAnalysis-Computation.md

Source to slide(s)

../../bricks/ARC_Structure_DataPLANT-5Folder_Structure_DataAnalysis-Computation_Images.md

Source to slide(s)

../../bricks/ARC_Structure_DataPLANT-6Folder_Structure_MetadataAnnotation.md

Source to slide(s)

../../../units/lesson_022_ARC_structure_DataPLANT/lesson_022_ARC_structure_DataPLANT.md

Here you could address the general problems of the user. FAIRData_ActivationEnergy and FAIRData_ActivationEnergy_withDataPLANT would also be appropriate.

Source to slide(s)

../../bricks/User_Challenges.md

Here one could elaborate on the ARC structure as deeply as desired. In addition, Swate incl. ontology could be discussed here.

Source to slide(s)

../../bricks/FAIR-using-ARC.md

Source to slide(s)

../../bricks/BigPicture_ARC_DataPLANT-1Storage-and-BackUp.md

Source to slide(s)

../../bricks/BigPicture_ARC_DataPLANT-2Versioning.md

Source to slide(s)

../../bricks/BigPicture_ARC_DataPLANT-3CollaborationAndAccessManagement.md

Here one could address repositories in general, but also ROC, Galaxy or Invenio.

Source to slide(s)

../../bricks/BigPicture_ARC_DataPLANT-4MultipleContribution.md

Source to slide(s)

../../bricks/BigPicture_ARC_DataPLANT-5ReferenceAndReuse.md

Source to slide(s)

../../bricks/BigPicture_ARC_DataPLANT-6Publish.md

Source to slide(s)

../../bricks/BigPicture_ARC_DataPLANT.md

Source to slide(s)

../../../units/lesson_030_BigPicture_ARC_DataPLANT/lesson_030_BigPicture_ARC_DataPLANT.md

## Tutor prep: diff --git a/docs/teaching-materials/disseminations/CEPLAS-StartYourARC-Series/2023-05-17_CEPLAS-Session02-prep/2023-05-17_CEPLAS-Session02-prep.html b/docs/teaching-materials/disseminations/CEPLAS-StartYourARC-Series/2023-05-17_CEPLAS-Session02-prep/2023-05-17_CEPLAS-Session02-prep.html index c31a2066a..49747ab70 100644 --- a/docs/teaching-materials/disseminations/CEPLAS-StartYourARC-Series/2023-05-17_CEPLAS-Session02-prep/2023-05-17_CEPLAS-Session02-prep.html +++ b/docs/teaching-materials/disseminations/CEPLAS-StartYourARC-Series/2023-05-17_CEPLAS-Session02-prep/2023-05-17_CEPLAS-Session02-prep.html @@ -26,7 +26,7 @@

Start Your ARC Workshop Series


Dominik Brilhaus – CEPLAS Data Science

-
+

Checklist ARC hands-on

💡 Please follow the next slides to register with DataPLANT and install some helper tools on your computer

@@ -35,20 +35,20 @@

Checklist ARC hands-on

  • ✅ Find your terminal
  • ✅ Install ARC Commander and dependencies on your computer
    • - +
    -
    +

    DataPLANT Registration

    If you do not have a DataPLANT account, please register at the DataPLANT website.

    - +
    -
    +

    Role and consortium

    Please add your Project/consortium (e.g. CEPLAS, SFB, TRR) and choose the role Guest

    - +
    -
    +

    The command line

    Find the command-line interface (CLI) on your system.

      @@ -57,24 +57,24 @@

      The command line


    > Note: In our tutorials we sometimes use "terminal", "command-line interface (CLI)" and "powershell" interchangeably. - +
    -
    +

    ARC Commander Installation

    Please install the latest version of the ARC Commander and dependencies for your operating system according to the manual's setup instructions.

    Check if the ARC Commander is functional by displaying the ARC Commander version and help menu:

    arc --version
    - +
    -
    +

    Hands-on: Bring your own data

    In the hands-on session, we would like to start creating an ARC together.
    To do so, please bring some data!

    This can be data of your current research project or an already published manuscript with supplemental data. Anything that you feel familiar with.

    - +
    -
    +

    Resources

    CEPLAS Data Science

    @@ -87,7 +87,7 @@

    https://git.nfdi4plants.org
    GitHub: https://github.com/nfdi4plants

    - +

    Title slide to class

    Source to slide(s)

    ../custom/bricks/ceplas-title-02.md

    - Install ARCitect on your computer :white_check_mark:

    Source to slide(s)

    ../../../bricks/checklist_ARC_hands-on.md

    Source to slide(s)

    ../../../bricks/datahub_registration.md

    Source to slide(s)

    ../custom/bricks/ceplas-datahub-registration.md

    Source to slide(s)

    ../../../bricks/tutorial_IntroCLI-The_command_line.md

    Source to slide(s)

    ../../../bricks/tutorial_arc_installation.md

    Source to slide(s)

    ../../../bricks/arc-hands-on-byod.md

    Source to slide(s)

    ../custom/bricks/links-resources.md

    Title slide to class

    ## Open the online notepad diff --git a/docs/teaching-materials/disseminations/CEPLAS-StartYourARC-Series/2023-06-01_CEPLAS-Session03-prep/2023-06-01_CEPLAS-Session03-prep.html b/docs/teaching-materials/disseminations/CEPLAS-StartYourARC-Series/2023-06-01_CEPLAS-Session03-prep/2023-06-01_CEPLAS-Session03-prep.html index 93e60c700..bee766b17 100644 --- a/docs/teaching-materials/disseminations/CEPLAS-StartYourARC-Series/2023-06-01_CEPLAS-Session03-prep/2023-06-01_CEPLAS-Session03-prep.html +++ b/docs/teaching-materials/disseminations/CEPLAS-StartYourARC-Series/2023-06-01_CEPLAS-Session03-prep/2023-06-01_CEPLAS-Session03-prep.html @@ -26,25 +26,25 @@

    Start Your ARC Workshop Series


    Dominik Brilhaus - CEPLAS Data Science

    -
    +

    Checklist ARC data annotation hands-on

    • ✅ Install Swate on your computer
    • ✅ Prepare an ARC with your data
    - +
    -
    +

    Swate Installation

    Please follow these instructions to install the latest version of Swate.

    - +
    -
    +

    Part 1: Prepare your ARC

    - +
    -
    +

    Your fresh ARC folder

    1. 💻 Create a new folder, which you want to initialize as an ARC.
      2. @@ -54,33 +54,33 @@

      Your fresh ARC folder

      mkdir -p ~/Desktop/workshop-arcs/my-arc
 cd ~/Desktop/workshop-arcs/my-arc
      - +
    -
    +

    ARC initialization

    Initialize your ARC by executing

    arc init
    - +
    -
    +

    Upload your local ARC to the DataHUB

    In order to connect your local ARC with a remote ARC, you can specify the remote address with the flag -r followed by the URL of the remote ARC

    arc sync -r https://git.nfdi4plants.org/<username>/my-arc
    - +
    -
    +

    Successful ARC synchronization

    Check if the upload was successful by visiting your ARC at the respective URL in your browser.

    - +
    -
    +

    Part 2: Adding subfolders for your data

    - +
    -
    +

    Preparation

    Before you can fill your ARC, let's revise your data.

      @@ -96,56 +96,56 @@

      Preparation

      💡 It might help to have this info ready in a text file. In particular, try to think about useful identifiers for investigation, study and assay.

      - +
    -
    +

    ISA investigation

    The ISA investigation (-i) workbook allows you to record administrative metadata of your project. Add the isa.investigation.xlsx workbook including an identifier to your ARC with

    arc investigation create --identifier <YourInvestigationID>

    💡 Avoid using spaces in the identifier. Use underscores and capital letters instead.

    - +
    -
    +

    ISA studies and assays

    The ISA study (s) and ISA assay (a) workbooks allow you to annotate your experimental data.

    - +
    -
    +

    Adding a study

    Add a study folder with the isa.study.xlsx workbook including an identifier to your ARC with

    arc s add --studyidentifier <YourStudyID>
    - +
    -
    +

    Adding an assay

    Add an assay folder with the isa.assay.xlsx workbook including an identifier to your ARC with

    arc assay add --studyidentifier <YourStudyID> --assayidentifier <YourAssayID>

    💡 An assay must be linked to a study. If a study does not exist, it will be created automatically in this step.

    - +
    -
    +

    ISA studies and assays

    The ARC Commander adds subdirectories to the studies and assays folders. Your ARC should, look similar to this now:

    These steps can be repeated to add as many studies and assays as needed. Accordingly, more subdirectories will be added

    - +
    -
    +

    Sync your ARC to the DataHUB

    To save the changes, sync the ARC to the DataHUB including a message (-m).

    arc sync -m "initiate arc structure"

    🌐 Check your ARC in the DataHUB.

    - +
    -
    +

    Part 3: Structure your data

    - +
    -
    +

    Start adding your data to the ARC

    Try to place your resources, datasets and protocols for each study and assay in the respective folders.

    @@ -155,53 +155,53 @@

    Start adding your data to the ARC

    Sometimes you might not immediately find a suitable position for your data
    - +
    -
    +

    Part 4: Invite collaborators

    • Unless changed, your ARC is set to private by default.
    • To collaborate, you can invite lab colleagues or project partners to your ARC by following the steps on the subsequent slides.
    • To get started sign in to the DataHUB and open the ARC you want to share.
    - +
    -
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    1. Click on Project Information in the left navigation panel

    fit

    - +
    -
    +
    1. Click on Members

    fit

    - +
    -
    +
    1. Click on Invite members

    fit

    - +
    -
    +
    1. Search for potential collaborators

    fit

    - +
    -
    +
    1. Select a role

    fit

    - +
    -
    +

    Choosing the proper role

    Guest
    Have the least rights. This is recommended for people you ask for consultancy.

    @@ -210,16 +210,16 @@

    Choosing the proper role

    Maintainers
    Gives the person the same rights as you have (except of removing you from your own project). This is recommended for inviting PIs or group leaders allowing them to add their group members for data upload or analysis to the project as well.

    A detailed list of all permissions for the individual roles can be found here

    - +
    -
    +

    Congratulations!

    You have just shared your ARC with a collaborator.

    - +
    -
    +

    Contributors

    Slides presented here include contributions by

    - +

    Title slide to class

    Source to slide(s)

    ../../bricks/datahub_invite-collaborators.md

    Source to slide(s)

    ../../bricks/datahub_choose-collaborator-role.md

    Source to slide(s)

    ../../bricks/datahub_congrats-for-sharing.md

    Source to slide(s)

    ../../bricks/ARC_ISA-tab.md

    Source to slide(s)

    ../../bricks/ARC_ISAmodel.md

    Source to slide(s)

    ../../bricks/ARC_ISAxlsx01.md

    Source to slide(s)

    ../../bricks/ARC_ISAxlsx02.md

    Source to slide(s)

    ../../bricks/ARC_ISAxlsx03.md

    Source to slide(s)

    ../../bricks/ARC_ISAxlsx04.md

    Source to slide(s)

    ../../bricks/ARC_ISA-tab.md

    Source to slide(s)

    ../../bricks/ARC_ISAmodel.md

    Source to slide(s)

    ../../bricks/ARC_ISAxlsx01.md

    Source to slide(s)

    ../../bricks/ARC_ISAxlsx02.md

    Source to slide(s)

    ../../bricks/ARC_ISAxlsx03.md

    Source to slide(s)

    ../../bricks/ARC_ISAxlsx04.md

    \ No newline at end of file diff --git a/docs/teaching-materials/units/SwateTemplates/SwateTemplates.html b/docs/teaching-materials/units/SwateTemplates/SwateTemplates.html index 0d28b1a4f..da0a0e071 100644 --- a/docs/teaching-materials/units/SwateTemplates/SwateTemplates.html +++ b/docs/teaching-materials/units/SwateTemplates/SwateTemplates.html @@ -19,31 +19,31 @@ /* Center images in the main section ("block") */div#p>svg>foreignObject>section p img{display:block;margin:0px auto 0px auto /* top right bottom left*/}div#p>svg>foreignObject>section img.emoji{display:inline} /* Styling page number */div#p>svg>foreignObject>section:after{font-family:Calibri,sans-serif;font-size:20px;color:#2D3E50}div#p>svg>foreignObject>section:after{--marpit-root-font-size:20px}div#p>svg>foreignObject>section footer{height:30px;padding:10px;bottom:00px}div#p>svg>foreignObject>section #footer-img1{height:30px;padding-left:0px}div#p>svg>foreignObject>section #footer-img2{height:20px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section[data-marpit-scope-JYX63XMF] :is(h1,marp-h1){text-align:left}div#p>svg>foreignObject>section[data-marpit-scope-JYX63XMF]{text-align:center}div#p>svg>foreignObject>section[data-marpit-scope-kNWtE1oM] p img{width:900px;height:400px;object-fit:cover;object-position:50% 60% -/* display: block; */}div#p>svg>foreignObject>section[data-marpit-scope-kNWtE1oM] :is(h1,marp-h1){text-align:left}div#p>svg>foreignObject>section[data-marpit-scope-kNWtE1oM]{text-align:center}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]{columns:initial!important;display:block!important;padding:0!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:before,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:before{display:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]{all:initial;display:flex;flex-direction:row;height:100%;overflow:hidden;width:100%}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container][data-marpit-advanced-background-direction=vertical]{flex-direction:column}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split]>div[data-marpit-advanced-background-container]{width:var(--marpit-advanced-background-split,50%)}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split=right]>div[data-marpit-advanced-background-container]{margin-left:calc(100% - var(--marpit-advanced-background-split, 50%))}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]>figure{all:initial;background-position:center;background-repeat:no-repeat;background-size:cover;flex:auto;margin:0}div#p>svg>foreignObject>section[data-marpit-advanced-background=content],div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo]{background:transparent!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo],div#p>svg[data-marpit-svg]>foreignObject[data-marpit-advanced-background=pseudo]{pointer-events:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background-split]{width:100%;height:100%}
    +/* display: block; */}div#p>svg>foreignObject>section[data-marpit-scope-kNWtE1oM] :is(h1,marp-h1){text-align:left}div#p>svg>foreignObject>section[data-marpit-scope-kNWtE1oM]{text-align:center}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]{columns:initial!important;display:block!important;padding:0!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:before,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:before{display:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]{all:initial;display:flex;flex-direction:row;height:100%;overflow:hidden;width:100%}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container][data-marpit-advanced-background-direction=vertical]{flex-direction:column}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split]>div[data-marpit-advanced-background-container]{width:var(--marpit-advanced-background-split,50%)}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split=right]>div[data-marpit-advanced-background-container]{margin-left:calc(100% - var(--marpit-advanced-background-split, 50%))}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]>figure{all:initial;background-position:center;background-repeat:no-repeat;background-size:cover;flex:auto;margin:0}div#p>svg>foreignObject>section[data-marpit-advanced-background=content],div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo]{background:transparent!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo],div#p>svg[data-marpit-svg]>foreignObject[data-marpit-advanced-background=pseudo]{pointer-events:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background-split]{width:100%;height:100%}

    Swate Templates

    - +
    -
    +

    Checklists and Templates

    Metadata standards or repository requirements can be represented as templates

    - +
    -
    +

    Realization of lab-specific metadata templates

    Facilities can define their most common workflows as templates

    - +
    -
    +

    Directly import templates via Swate

    • DataPLANT curated
    • Community templates
    - +

    Source to slide(s)

    ../../bricks/Swate-templates01-title.md

    Source to slide(s)

    ../../bricks/Swate-templates02-checklists.md

    Source to slide(s)

    ../../bricks/Swate-templates03-labspecific.md

    Source to slide(s)

    ../../bricks/Swate-templates04-import.md

    Source to slide(s)

    ../../bricks/Swate-templates01-title.md

    Source to slide(s)

    ../../bricks/Swate-templates02-checklists.md

    Source to slide(s)

    ../../bricks/Swate-templates03-labspecific.md

    Source to slide(s)

    ../../bricks/Swate-templates04-import.md

    \ No newline at end of file diff --git a/docs/teaching-materials/units/exercise_FAIRProject/exercise_FAIRProject.html b/docs/teaching-materials/units/exercise_FAIRProject/exercise_FAIRProject.html index cc155a766..688f3bc20 100644 --- a/docs/teaching-materials/units/exercise_FAIRProject/exercise_FAIRProject.html +++ b/docs/teaching-materials/units/exercise_FAIRProject/exercise_FAIRProject.html @@ -18,11 +18,11 @@ /* Center images in the main section ("block") */div#p>svg>foreignObject>section p img{display:block;margin:0px auto 0px auto /* top right bottom left*/}div#p>svg>foreignObject>section img.emoji{display:inline} -/* Styling page number */div#p>svg>foreignObject>section:after{font-family:Calibri,sans-serif;font-size:20px;color:#2D3E50}div#p>svg>foreignObject>section:after{--marpit-root-font-size:20px}div#p>svg>foreignObject>section footer{height:30px;padding:10px;bottom:00px}div#p>svg>foreignObject>section #footer-img1{height:30px;padding-left:0px}div#p>svg>foreignObject>section #footer-img2{height:30px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section #footer-img3{height:20px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section[data-marpit-scope-sSuqhfGM] :is(h1,marp-h1){color:white}div#p>svg>foreignObject>section[data-marpit-scope-sSuqhfGM]{text-align:center;background-color:#c21f3a}div#p>svg>foreignObject>section[data-marpit-scope-sSuqhfGM]:after{display:none}div#p>svg>foreignObject>section[data-marpit-scope-sSuqhfGM] footer{display:none}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]{columns:initial!important;display:block!important;padding:0!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:before,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:before{display:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]{all:initial;display:flex;flex-direction:row;height:100%;overflow:hidden;width:100%}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container][data-marpit-advanced-background-direction=vertical]{flex-direction:column}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split]>div[data-marpit-advanced-background-container]{width:var(--marpit-advanced-background-split,50%)}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split=right]>div[data-marpit-advanced-background-container]{margin-left:calc(100% - var(--marpit-advanced-background-split, 50%))}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]>figure{all:initial;background-position:center;background-repeat:no-repeat;background-size:cover;flex:auto;margin:0}div#p>svg>foreignObject>section[data-marpit-advanced-background=content],div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo]{background:transparent!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo],div#p>svg[data-marpit-svg]>foreignObject[data-marpit-advanced-background=pseudo]{pointer-events:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background-split]{width:100%;height:100%}
    +/* Styling page number */div#p>svg>foreignObject>section:after{font-family:Calibri,sans-serif;font-size:20px;color:#2D3E50}div#p>svg>foreignObject>section:after{--marpit-root-font-size:20px}div#p>svg>foreignObject>section footer{height:30px;padding:10px;bottom:00px}div#p>svg>foreignObject>section #footer-img1{height:30px;padding-left:0px}div#p>svg>foreignObject>section #footer-img2{height:30px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section #footer-img3{height:20px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section[data-marpit-scope-sSuqhfGM] :is(h1,marp-h1){color:white}div#p>svg>foreignObject>section[data-marpit-scope-sSuqhfGM]{text-align:center;background-color:#c21f3a}div#p>svg>foreignObject>section[data-marpit-scope-sSuqhfGM]:after{display:none}div#p>svg>foreignObject>section[data-marpit-scope-sSuqhfGM] footer{display:none}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]{columns:initial!important;display:block!important;padding:0!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:before,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:before{display:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]{all:initial;display:flex;flex-direction:row;height:100%;overflow:hidden;width:100%}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container][data-marpit-advanced-background-direction=vertical]{flex-direction:column}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split]>div[data-marpit-advanced-background-container]{width:var(--marpit-advanced-background-split,50%)}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split=right]>div[data-marpit-advanced-background-container]{margin-left:calc(100% - var(--marpit-advanced-background-split, 50%))}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]>figure{all:initial;background-position:center;background-repeat:no-repeat;background-size:cover;flex:auto;margin:0}div#p>svg>foreignObject>section[data-marpit-advanced-background=content],div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo]{background:transparent!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo],div#p>svg[data-marpit-svg]>foreignObject[data-marpit-advanced-background=pseudo]{pointer-events:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background-split]{width:100%;height:100%}

    Understand your colleague’s project

    - +
    -
    +

    Preparation (Tutor)

    1. Assign arbitrary participant IDs for participants
      2. @@ -30,9 +30,9 @@

      Preparation (Tutor)

    2. Invite people (see point below) and share their ArbitraryParticipantIDs via Email
    3. Make sure to add copyright / sharing disclaimer and share in a folder only for that class
    - +
    -
    +

    Prerequisites (Participants)

    1. Share the data required to reproduce your BA / MA / PhD thesis
      2. @@ -44,9 +44,9 @@

      Prerequisites (Participants)

    2. Try to keep the overall folder size below 300 MB.
      -->
    - +
    -
    +

    Understand your colleague’s project

    1. Go to the shared folder prepared before class
      2. @@ -58,9 +58,9 @@

      Understand your colleague’s project

    2. How was the data analyzed (~ computational methods, statistics)?
    3. Collect all of the above in a README_<YourArbitraryParticipantID>.txt in the same folder.
    - +
    -
    +

    Assignment

    @@ -88,7 +88,7 @@

    Assignment

    - +

    Source to slide(s)

    ../../bricks/exercise_FAIRProject-Title.md

    Source to slide(s)

    ../../bricks/exercise_FAIRProject-Preparation_Tutor.md

    Source to slide(s)

    ../../bricks/exercise_FAIRProject-Prerequisites_Participants.md

    Source to slide(s)

    ../../bricks/exercise_FAIRProject-Understand_project.md

    Source to slide(s)

    ../../bricks/exercise_FAIRProject-Assignment.md

    Source to slide(s)

    ../../bricks/exercise_FAIRProject_ARC-title.md

    Source to slide(s)

    ../../bricks/exercise_FAIRProject_ARC-assignment.md

    Source to slide(s)

    ../../bricks/exercise_FAIRProject_SWATE-title.md

    Source to slide(s)

    ../../bricks/exercise_FAIRProject_SWATE-Annotate.md

    Source to slide(s)

    ../../bricks/exercise_FAIRProject_final-Share_your_ARC.md

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    ../../bricks/exercise_FAIRProject_final-Understand_ARC.md

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    ../../bricks/exercise_FAIRProject_final-Assignment.md

    Source to slide(s)

    ../../bricks/metadata_types.md

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    ../../bricks/metadata_FAIR.md

    Source to slide(s)

    ../../bricks/ARC_DataCentricIntegration.md

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    ../../bricks/ARC_Structure_DataPLANT-1Folder_Structure.md

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    ../../bricks/ARC_Structure_DataPLANT-2Folder_Structure_ExperimentalData.md

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    ../../bricks/ARC_Structure_DataPLANT-3Folder_Structure_ExperimentalData_Images.md

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    ../../bricks/ARC_Structure_DataPLANT-4Folder_Structure_DataAnalysis-Computation.md

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    ../../bricks/ARC_Structure_DataPLANT-5Folder_Structure_DataAnalysis-Computation_Images.md

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    ../../bricks/ARC_Structure_DataPLANT-6Folder_Structure_MetadataAnnotation.md

    Source to slide(s)

    ../../bricks/DataHUB-title.md

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    ../../bricks/DataHUB-collaboration.md

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    ../../bricks/ResearchDataLifecycle01-Plan.md

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    ../../bricks/ResearchDataLifecycle02-Collect.md

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    ../../bricks/ResearchDataLifecycle03-Process.md

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    ../../bricks/ResearchDataLifecycle04-Analyse.md

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    ../../bricks/ResearchDataLifecycle05-Preserve.md

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    ../../bricks/ResearchDataLifecycle06-Share.md

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    ../../bricks/ResearchDataLifecycle07-Reuse.md

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    ../../bricks/ResearchDataLifecycle08-Loops.md

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    ../../bricks/ResearchDataLifecycle09-Cross.md

    Source to slide(s)

    ../../bricks/SchemaStandards-title.md

    TODO: diff --git a/docs/teaching-materials/units/lesson_Swate_DataPLANT/lesson_Swate_DataPLANT.html b/docs/teaching-materials/units/lesson_Swate_DataPLANT/lesson_Swate_DataPLANT.html index 50a4b6933..52ac4230f 100644 --- a/docs/teaching-materials/units/lesson_Swate_DataPLANT/lesson_Swate_DataPLANT.html +++ b/docs/teaching-materials/units/lesson_Swate_DataPLANT/lesson_Swate_DataPLANT.html @@ -18,21 +18,21 @@ /* Center images in the main section ("block") */div#p>svg>foreignObject>section p img{display:block;margin:0px auto 0px auto /* top right bottom left*/}div#p>svg>foreignObject>section img.emoji{display:inline} -/* Styling page number */div#p>svg>foreignObject>section:after{font-family:Calibri,sans-serif;font-size:20px;color:#2D3E50}div#p>svg>foreignObject>section:after{--marpit-root-font-size:20px}div#p>svg>foreignObject>section footer{height:30px;padding:10px;bottom:00px}div#p>svg>foreignObject>section #footer-img1{height:30px;padding-left:0px}div#p>svg>foreignObject>section #footer-img2{height:20px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section[data-marpit-scope-ARy6toKT] :is(h1,marp-h1){text-align:left}div#p>svg>foreignObject>section[data-marpit-scope-ARy6toKT]{text-align:center}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]{columns:initial!important;display:block!important;padding:0!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:before,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:before{display:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]{all:initial;display:flex;flex-direction:row;height:100%;overflow:hidden;width:100%}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container][data-marpit-advanced-background-direction=vertical]{flex-direction:column}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split]>div[data-marpit-advanced-background-container]{width:var(--marpit-advanced-background-split,50%)}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split=right]>div[data-marpit-advanced-background-container]{margin-left:calc(100% - var(--marpit-advanced-background-split, 50%))}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]>figure{all:initial;background-position:center;background-repeat:no-repeat;background-size:cover;flex:auto;margin:0}div#p>svg>foreignObject>section[data-marpit-advanced-background=content],div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo]{background:transparent!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo],div#p>svg[data-marpit-svg]>foreignObject[data-marpit-advanced-background=pseudo]{pointer-events:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background-split]{width:100%;height:100%}

    +/* Styling page number */div#p>svg>foreignObject>section:after{font-family:Calibri,sans-serif;font-size:20px;color:#2D3E50}div#p>svg>foreignObject>section:after{--marpit-root-font-size:20px}div#p>svg>foreignObject>section footer{height:30px;padding:10px;bottom:00px}div#p>svg>foreignObject>section #footer-img1{height:30px;padding-left:0px}div#p>svg>foreignObject>section #footer-img2{height:20px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section[data-marpit-scope-ARy6toKT] :is(h1,marp-h1){text-align:left}div#p>svg>foreignObject>section[data-marpit-scope-ARy6toKT]{text-align:center}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]{columns:initial!important;display:block!important;padding:0!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:before,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:before{display:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]{all:initial;display:flex;flex-direction:row;height:100%;overflow:hidden;width:100%}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container][data-marpit-advanced-background-direction=vertical]{flex-direction:column}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split]>div[data-marpit-advanced-background-container]{width:var(--marpit-advanced-background-split,50%)}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split=right]>div[data-marpit-advanced-background-container]{margin-left:calc(100% - var(--marpit-advanced-background-split, 50%))}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]>figure{all:initial;background-position:center;background-repeat:no-repeat;background-size:cover;flex:auto;margin:0}div#p>svg>foreignObject>section[data-marpit-advanced-background=content],div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo]{background:transparent!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo],div#p>svg[data-marpit-svg]>foreignObject[data-marpit-advanced-background=pseudo]{pointer-events:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background-split]{width:100%;height:100%}

    Swate workflow annotation tool for Excel

    -

    - +

    +
    -
    +

    Annotation by flattening the knowledge graph

    • Low-friction metadata annotation
    • Familiar spreadsheet, row/column-based environment
    - +
    -
    +

    Annotation principle

    @@ -40,17 +40,17 @@

    Annotation principle

  • Low-friction metadata annotation
  • Familiar spreadsheet, row/column-based environment
    • - +
    -
    +

    Adding new building blocks (columns)

    • Swate can be used for the annotation of isa.study.xlsx and isa.assay.xlsx files
    - +
    -
    +

    Annotation Building Block types

      @@ -70,24 +70,24 @@

      Annotation Building Block types

    - +
    -
    +

    Ontology term search

    Enable related term directed search to directly fill cells with child terms

    - +
    -
    +

    Fill your table with ontology terms

    - +
    -
    +

    Hierarchical combination of ontologies

    - +

    Source to slide(s)

    ../../bricks/lesson_Swate_DataPLANT-Swate_workflow_annotation_tool_for_Excel.md

    Source to slide(s)

    ../../bricks/lesson_Swate_DataPLANT-Annotation_by_flattening_the_knowledge_graph.md

    <style scoped> diff --git a/docs/teaching-materials/units/lesson_documentation/lesson_documentation.html b/docs/teaching-materials/units/lesson_documentation/lesson_documentation.html index d4c627f8d..7db1c12f2 100644 --- a/docs/teaching-materials/units/lesson_documentation/lesson_documentation.html +++ b/docs/teaching-materials/units/lesson_documentation/lesson_documentation.html @@ -19,7 +19,7 @@ /* Center images in the main section ("block") */div#p>svg>foreignObject>section p img{display:block;margin:0px auto 0px auto /* top right bottom left*/}div#p>svg>foreignObject>section img.emoji{display:inline} /* Styling page number */div#p>svg>foreignObject>section:after{font-family:Calibri,sans-serif;font-size:20px;color:#2D3E50}div#p>svg>foreignObject>section:after{--marpit-root-font-size:20px}div#p>svg>foreignObject>section footer{height:30px;padding:10px;bottom:00px}div#p>svg>foreignObject>section #footer-img1{height:30px;padding-left:0px}div#p>svg>foreignObject>section #footer-img2{height:30px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section #footer-img3{height:20px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section[data-marpit-scope-GzKwGd1N] .columns{display:grid;grid-template-columns:repeat(3,minmax(0,1fr));gap:calc(var(--marpit-root-font-size, 1rem) * 1)}div#p>svg>foreignObject>section[data-marpit-scope-GzKwGd1N] ul{margin:5;padding:0}div#p>svg>foreignObject>section[data-marpit-scope-RAQGPy75] .columns{display:grid;grid-template-columns:repeat(2,minmax(0,1fr));gap:calc(var(--marpit-root-font-size, 1rem) * 5)}div#p>svg>foreignObject>section[data-marpit-scope-RAQGPy75] ul{margin:5;padding:0}div#p>svg>foreignObject>section[data-marpit-scope-WkzSHCkV] .columns{display:grid;grid-template-columns:repeat(2,minmax(0,1fr));gap:calc(var(--marpit-root-font-size, 1rem) * 1)}div#p>svg>foreignObject>section[data-marpit-scope-WkzSHCkV] ul{font-size:25px - /* margin: 5; padding: 0; */}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]{columns:initial!important;display:block!important;padding:0!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:before,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:before{display:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]{all:initial;display:flex;flex-direction:row;height:100%;overflow:hidden;width:100%}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container][data-marpit-advanced-background-direction=vertical]{flex-direction:column}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split]>div[data-marpit-advanced-background-container]{width:var(--marpit-advanced-background-split,50%)}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split=right]>div[data-marpit-advanced-background-container]{margin-left:calc(100% - var(--marpit-advanced-background-split, 50%))}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]>figure{all:initial;background-position:center;background-repeat:no-repeat;background-size:cover;flex:auto;margin:0}div#p>svg>foreignObject>section[data-marpit-advanced-background=content],div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo]{background:transparent!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo],div#p>svg[data-marpit-svg]>foreignObject[data-marpit-advanced-background=pseudo]{pointer-events:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background-split]{width:100%;height:100%}

    + /* margin: 5; padding: 0; */}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]{columns:initial!important;display:block!important;padding:0!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:before,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:before{display:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]{all:initial;display:flex;flex-direction:row;height:100%;overflow:hidden;width:100%}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container][data-marpit-advanced-background-direction=vertical]{flex-direction:column}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split]>div[data-marpit-advanced-background-container]{width:var(--marpit-advanced-background-split,50%)}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split=right]>div[data-marpit-advanced-background-container]{margin-left:calc(100% - var(--marpit-advanced-background-split, 50%))}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]>figure{all:initial;background-position:center;background-repeat:no-repeat;background-size:cover;flex:auto;margin:0}div#p>svg>foreignObject>section[data-marpit-advanced-background=content],div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo]{background:transparent!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo],div#p>svg[data-marpit-svg]>foreignObject[data-marpit-advanced-background=pseudo]{pointer-events:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background-split]{width:100%;height:100%}

    Digital documentation

    Of anything from green house to digital data object

    Electronic lab notebook

    @@ -33,9 +33,9 @@

    Digital documentation

  • Analyses (excel, code, etc.)
  • Keep track of tools, versions and parameters used
    • - +
    -
    +

    Electronic lab notebooks (ELNs)

    @@ -66,9 +66,9 @@

    Limited

    - +
    -
    +

    Markup Languages

    • HyperText Markup Language (HTML)
      • @@ -81,9 +81,9 @@

      Markup Languages

      WYSIWYG: What You See Is What You Get
      You literally "code out", what you want the text to look like

      - +
    -
    +

    Markdown vs. HTML

    @@ -106,18 +106,18 @@

    headline level 3

    headline level 4

    - +
    -
    +

    What is Markdown?

    - +
    -
    +

    Why Markdown?

    @@ -148,9 +148,9 @@

    extendible

    • many programs, tools and platforms work with or understand markdown
    - +
    -
    +

    Text editors and IDEs

    Please do not open markdown (.md) files in MS word

    Recommended text editors with code highlighting

    @@ -168,7 +168,7 @@

    Text editors and IDEs

    These highlight the structure / hierarchy of many text / code file types and make them a bit more comprehensible than pure text editors

    - +

    Source to slide(s)

    ../../bricks/lesson_documentation-Digital_documentation.md

    Source to slide(s)

    ../../bricks/lesson_documentation-ELNs.md

    Source to slide(s)

    ../../bricks/lesson_documentation-Markup_Languages.md

    Source to slide(s)

    ../../bricks/lesson_documentation-Markdown_HTML.md

    Source to slide(s)

    ../../bricks/lesson_documentation-Markdown.md

    Source to slide(s)

    ../../bricks/lesson_documentation-Why_Markdown.md

    Source to slide(s)

    ../../bricks/lesson_documentation-Text_editors_and_IDEs.md

    Source to slide(s)

    ../../bricks/FAIR-benefits.md

    Source to slide(s)

    ../../bricks/lesson_FAIR_outro-Associate_FAIR.md

    Source to slide(s)

    ../../bricks/lesson_FAIR_outro-Associate_DataLifeCycle.md

    Source to slide(s)

    ../../bricks/lesson_FAIR_outro-Associate_FAIR.md

    Source to slide(s)

    ../../bricks/lesson_FAIR_outro-Associate_DataLifeCycle.md

    \ No newline at end of file diff --git a/docs/teaching-materials/units/lesson_ontology/lesson_ontology.html b/docs/teaching-materials/units/lesson_ontology/lesson_ontology.html index 6f32721f4..ff6e7ead8 100644 --- a/docs/teaching-materials/units/lesson_ontology/lesson_ontology.html +++ b/docs/teaching-materials/units/lesson_ontology/lesson_ontology.html @@ -18,7 +18,7 @@ /* Center images in the main section ("block") */div#p>svg>foreignObject>section p img{display:block;margin:0px auto 0px auto /* top right bottom left*/}div#p>svg>foreignObject>section img.emoji{display:inline} -/* Styling page number */div#p>svg>foreignObject>section:after{font-family:Calibri,sans-serif;font-size:20px;color:#2D3E50}div#p>svg>foreignObject>section:after{--marpit-root-font-size:20px}div#p>svg>foreignObject>section footer{height:30px;padding:10px;bottom:00px}div#p>svg>foreignObject>section #footer-img1{height:30px;padding-left:0px}div#p>svg>foreignObject>section #footer-img2{height:30px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section #footer-img3{height:20px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]{columns:initial!important;display:block!important;padding:0!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:before,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:before{display:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]{all:initial;display:flex;flex-direction:row;height:100%;overflow:hidden;width:100%}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container][data-marpit-advanced-background-direction=vertical]{flex-direction:column}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split]>div[data-marpit-advanced-background-container]{width:var(--marpit-advanced-background-split,50%)}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split=right]>div[data-marpit-advanced-background-container]{margin-left:calc(100% - var(--marpit-advanced-background-split, 50%))}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]>figure{all:initial;background-position:center;background-repeat:no-repeat;background-size:cover;flex:auto;margin:0}div#p>svg>foreignObject>section[data-marpit-advanced-background=content],div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo]{background:transparent!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo],div#p>svg[data-marpit-svg]>foreignObject[data-marpit-advanced-background=pseudo]{pointer-events:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background-split]{width:100%;height:100%}
    +/* Styling page number */div#p>svg>foreignObject>section:after{font-family:Calibri,sans-serif;font-size:20px;color:#2D3E50}div#p>svg>foreignObject>section:after{--marpit-root-font-size:20px}div#p>svg>foreignObject>section footer{height:30px;padding:10px;bottom:00px}div#p>svg>foreignObject>section #footer-img1{height:30px;padding-left:0px}div#p>svg>foreignObject>section #footer-img2{height:30px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section #footer-img3{height:20px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]{columns:initial!important;display:block!important;padding:0!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:before,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:before{display:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]{all:initial;display:flex;flex-direction:row;height:100%;overflow:hidden;width:100%}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container][data-marpit-advanced-background-direction=vertical]{flex-direction:column}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split]>div[data-marpit-advanced-background-container]{width:var(--marpit-advanced-background-split,50%)}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split=right]>div[data-marpit-advanced-background-container]{margin-left:calc(100% - var(--marpit-advanced-background-split, 50%))}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]>figure{all:initial;background-position:center;background-repeat:no-repeat;background-size:cover;flex:auto;margin:0}div#p>svg>foreignObject>section[data-marpit-advanced-background=content],div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo]{background:transparent!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo],div#p>svg[data-marpit-svg]>foreignObject[data-marpit-advanced-background=pseudo]{pointer-events:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background-split]{width:100%;height:100%}

    Ontology

    (Sometimes also referred to "semantic model")

    An ontology combines features of

    @@ -33,28 +33,28 @@

    Ontology

  • Can be used in disambiguation, defining hierarchies, a standard to define terms
  • Define a common vocabulary of concepts and their relationships to model a particular domain while making it machine understandable
    • - +
    -
    +

    Dictionary

    Alphabetically lists terms and their definitions

    Pizza: "a dish made typically of flattened bread dough spread with a savory mixture usually including tomatoes and cheese and often other toppings and baked"

    - +
    -
    +

    Taxonomy

    Hierarchy or classification

    - +
    -
    +

    Thesaurus

    Dictionary of synonyms and relations

    Pizza ≈ Lahmacun ≈ Focaccia ≈ Flammkuchen

    - +
    -
    +

    Ontology

    (Sometimes also referred to "semantic model")

    An ontology combines features of

    @@ -69,73 +69,73 @@

    Ontology

  • Can be used in disambiguation, defining hierarchies, a standard to define terms
  • Define a common vocabulary of concepts and their relationships to model a particular domain while making it machine understandable
    • - +
    -
    +

    The semantic triple

    - +
    -
    +

    Modeling a pizza menu

    Modeling a pizza menu

    Modeling a pizza menu

    - +
    -
    +

    Modeling a pizza menu

    Modeling a pizza menu

    Modeling a pizza menu

    - +
    -
    +

    Modeling a pizza menu

    Modeling a pizza menu

    Modeling a pizza menu

    - +
    -
    +

    Predicates have two directions

    - +
    -
    +

    Looking at the menu from a different perspective

    An object of one triplet can be the subject to another

    - +
    -
    +

    (Towards) a knowledge graph

    - +
    -
    +

    Searching the menu

    An ontology can be queried:

    • "name all pizzas with topping mushrooms"
    - +
    -
    +

    The Pizza Ontology

    - +
    -
    +

    Example ontologies

    EDAM ontology

    - +

    Source to slide(s)

    ../../bricks/lesson_ontology-Ontology.md

    Source to slide(s)

    ../../bricks/lesson_ontology-Dictionary.md

    Source to slide(s)

    ../../bricks/lesson_ontology-Taxonomy.md

    Source to slide(s)

    ../../bricks/lesson_ontology-Thesaurus.md

    Source to slide(s)

    ../../bricks/lesson_ontology-Ontology.md

    Source to slide(s)

    ../../bricks/lesson_ontology-The_semantic_triple.md

    Source to slide(s)

    ../../bricks/lesson_ontology-Modeling_a_pizza_menu.md

    Source to slide(s)

    ../../bricks/lesson_ontology-Modeling_a_pizza_menu.md

    Source to slide(s)

    ../../bricks/lesson_ontology-Modeling_a_pizza_menu.md

    Source to slide(s)

    ../../bricks/lesson_ontology-Predicates_have_two_directions.md

    Source to slide(s)

    ../../bricks/lesson_ontology-Looking_at_the_menu.md

    Source to slide(s)

    ../../bricks/lesson_ontology-Towards_knowledge_graph.md

    TODO: diff --git a/docs/teaching-materials/units/lesson_repositories/lesson_repositories.html b/docs/teaching-materials/units/lesson_repositories/lesson_repositories.html index 20983080e..d57584e3d 100644 --- a/docs/teaching-materials/units/lesson_repositories/lesson_repositories.html +++ b/docs/teaching-materials/units/lesson_repositories/lesson_repositories.html @@ -21,7 +21,7 @@ /* Styling page number */div#p>svg>foreignObject>section:after{font-family:Calibri,sans-serif;font-size:20px;color:#2D3E50}div#p>svg>foreignObject>section:after{--marpit-root-font-size:20px}div#p>svg>foreignObject>section footer{height:30px;padding:10px;bottom:00px}div#p>svg>foreignObject>section #footer-img1{height:30px;padding-left:0px}div#p>svg>foreignObject>section #footer-img2{height:30px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section #footer-img3{height:20px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section[data-marpit-scope-am7P61Rd] table{width:100%;height:400} /*th { height: 250px; -}*/div#p>svg>foreignObject>section[data-marpit-advanced-background=background]{columns:initial!important;display:block!important;padding:0!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:before,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:before{display:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]{all:initial;display:flex;flex-direction:row;height:100%;overflow:hidden;width:100%}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container][data-marpit-advanced-background-direction=vertical]{flex-direction:column}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split]>div[data-marpit-advanced-background-container]{width:var(--marpit-advanced-background-split,50%)}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split=right]>div[data-marpit-advanced-background-container]{margin-left:calc(100% - var(--marpit-advanced-background-split, 50%))}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]>figure{all:initial;background-position:center;background-repeat:no-repeat;background-size:cover;flex:auto;margin:0}div#p>svg>foreignObject>section[data-marpit-advanced-background=content],div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo]{background:transparent!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo],div#p>svg[data-marpit-svg]>foreignObject[data-marpit-advanced-background=pseudo]{pointer-events:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background-split]{width:100%;height:100%}

    +}*/div#p>svg>foreignObject>section[data-marpit-advanced-background=background]{columns:initial!important;display:block!important;padding:0!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:before,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:before{display:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]{all:initial;display:flex;flex-direction:row;height:100%;overflow:hidden;width:100%}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container][data-marpit-advanced-background-direction=vertical]{flex-direction:column}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split]>div[data-marpit-advanced-background-container]{width:var(--marpit-advanced-background-split,50%)}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split=right]>div[data-marpit-advanced-background-container]{margin-left:calc(100% - var(--marpit-advanced-background-split, 50%))}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]>figure{all:initial;background-position:center;background-repeat:no-repeat;background-size:cover;flex:auto;margin:0}div#p>svg>foreignObject>section[data-marpit-advanced-background=content],div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo]{background:transparent!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo],div#p>svg[data-marpit-svg]>foreignObject[data-marpit-advanced-background=pseudo]{pointer-events:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background-split]{width:100%;height:100%}

    Domain-specific data repositories

    Good

      @@ -38,17 +38,17 @@

      Domain-specific data repositories

    • Different metadata schema
    • Complex and versatile submission routines
    - +
    -
    +

    Choosing a data repository

    Domain-specific >> Generic >> Institutional

    Find repositories at:
    https://www.re3data.org
    https://fairsharing.org

    - +
    -
    +

    Domain-specific data repositories

    @@ -107,9 +107,9 @@

    Domain-specific data repositories

    - +
    -
    +

    Generic data repositories

    Good

    @@ -123,8 +123,8 @@

    Generic data repositories

  • Only generic / high-level metadata schema
  • Limited reusability
    • - +

    Source to slide(s)

    ../../bricks/lesson_repositories-Domain-specific.md

    Source to slide(s)

    ../../bricks/lesson_repositories-Choosing_a_data_repository.md

    Source to slide(s)

    ../../bricks/lesson_repositories-Domain-specific-table.md

    Source to slide(s)

    ../../bricks/lesson_repositories-Generic_data_repositories.md

    Source to slide(s)

    ../../bricks/lesson_repositories-Domain-specific.md

    Source to slide(s)

    ../../bricks/lesson_repositories-Choosing_a_data_repository.md

    Source to slide(s)

    ../../bricks/lesson_repositories-Domain-specific-table.md

    Source to slide(s)

    ../../bricks/lesson_repositories-Generic_data_repositories.md

    \ No newline at end of file diff --git a/docs/teaching-materials/units/lesson_reproducibility/lesson_reproducibility.html b/docs/teaching-materials/units/lesson_reproducibility/lesson_reproducibility.html index 35ddd4ab3..d7243a377 100644 --- a/docs/teaching-materials/units/lesson_reproducibility/lesson_reproducibility.html +++ b/docs/teaching-materials/units/lesson_reproducibility/lesson_reproducibility.html @@ -18,7 +18,7 @@ /* Center images in the main section ("block") */div#p>svg>foreignObject>section p img{display:block;margin:0px auto 0px auto /* top right bottom left*/}div#p>svg>foreignObject>section img.emoji{display:inline} -/* Styling page number */div#p>svg>foreignObject>section:after{font-family:Calibri,sans-serif;font-size:20px;color:#2D3E50}div#p>svg>foreignObject>section:after{--marpit-root-font-size:20px}div#p>svg>foreignObject>section footer{height:30px;padding:10px;bottom:00px}div#p>svg>foreignObject>section #footer-img1{height:30px;padding-left:0px}div#p>svg>foreignObject>section #footer-img2{height:30px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section #footer-img3{height:20px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section[data-marpit-scope-gDmfPTpy] .columns{display:grid;grid-template-columns:repeat(2,minmax(0,1fr));gap:6em}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]{columns:initial!important;display:block!important;padding:0!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:before,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:before{display:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]{all:initial;display:flex;flex-direction:row;height:100%;overflow:hidden;width:100%}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container][data-marpit-advanced-background-direction=vertical]{flex-direction:column}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split]>div[data-marpit-advanced-background-container]{width:var(--marpit-advanced-background-split,50%)}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split=right]>div[data-marpit-advanced-background-container]{margin-left:calc(100% - var(--marpit-advanced-background-split, 50%))}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]>figure{all:initial;background-position:center;background-repeat:no-repeat;background-size:cover;flex:auto;margin:0}div#p>svg>foreignObject>section[data-marpit-advanced-background=content],div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo]{background:transparent!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo],div#p>svg[data-marpit-svg]>foreignObject[data-marpit-advanced-background=pseudo]{pointer-events:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background-split]{width:100%;height:100%}
    +/* Styling page number */div#p>svg>foreignObject>section:after{font-family:Calibri,sans-serif;font-size:20px;color:#2D3E50}div#p>svg>foreignObject>section:after{--marpit-root-font-size:20px}div#p>svg>foreignObject>section footer{height:30px;padding:10px;bottom:00px}div#p>svg>foreignObject>section #footer-img1{height:30px;padding-left:0px}div#p>svg>foreignObject>section #footer-img2{height:30px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section #footer-img3{height:20px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section[data-marpit-scope-gDmfPTpy] .columns{display:grid;grid-template-columns:repeat(2,minmax(0,1fr));gap:6em}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]{columns:initial!important;display:block!important;padding:0!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:before,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:before{display:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]{all:initial;display:flex;flex-direction:row;height:100%;overflow:hidden;width:100%}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container][data-marpit-advanced-background-direction=vertical]{flex-direction:column}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split]>div[data-marpit-advanced-background-container]{width:var(--marpit-advanced-background-split,50%)}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split=right]>div[data-marpit-advanced-background-container]{margin-left:calc(100% - var(--marpit-advanced-background-split, 50%))}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]>figure{all:initial;background-position:center;background-repeat:no-repeat;background-size:cover;flex:auto;margin:0}div#p>svg>foreignObject>section[data-marpit-advanced-background=content],div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo]{background:transparent!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo],div#p>svg[data-marpit-svg]>foreignObject[data-marpit-advanced-background=pseudo]{pointer-events:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background-split]{width:100%;height:100%}

    Code Notebooks

    • https://jupyter.org/
      • @@ -35,9 +35,9 @@

      Code Notebooks

    • Reproducibility (package / library dependencies)
    • Version control (e.g. git plugin)
    - +
    -
    +

    Computational workflow languages

    @@ -56,7 +56,7 @@

    Computational workflow languages



    https://galaxyproject.eu/

    - +

    Source to slide(s)

    ../../bricks/lesson_reproducibility-Code_Notebooks.md

    - <https://www.docker.com> diff --git a/docs/teaching-materials/units/promotion_001_DataPLANT-Overview/promotion_001_DataPLANT-Overview.html b/docs/teaching-materials/units/promotion_001_DataPLANT-Overview/promotion_001_DataPLANT-Overview.html index 306be3aca..c1b24ece1 100644 --- a/docs/teaching-materials/units/promotion_001_DataPLANT-Overview/promotion_001_DataPLANT-Overview.html +++ b/docs/teaching-materials/units/promotion_001_DataPLANT-Overview/promotion_001_DataPLANT-Overview.html @@ -11,7 +11,7 @@ */div#\:\$p>svg>foreignObject>section{--color-prettylights-syntax-comment:#6e7781;--color-prettylights-syntax-constant:#0550ae;--color-prettylights-syntax-entity:#8250df;--color-prettylights-syntax-storage-modifier-import:#24292f;--color-prettylights-syntax-entity-tag:#116329;--color-prettylights-syntax-keyword:#cf222e;--color-prettylights-syntax-string:#0a3069;--color-prettylights-syntax-variable:#953800;--color-prettylights-syntax-brackethighlighter-unmatched:#82071e;--color-prettylights-syntax-invalid-illegal-text:#f6f8fa;--color-prettylights-syntax-invalid-illegal-bg:#82071e;--color-prettylights-syntax-carriage-return-text:#f6f8fa;--color-prettylights-syntax-carriage-return-bg:#cf222e;--color-prettylights-syntax-string-regexp:#116329;--color-prettylights-syntax-markup-list:#3b2300;--color-prettylights-syntax-markup-heading:#0550ae;--color-prettylights-syntax-markup-italic:#24292f;--color-prettylights-syntax-markup-bold:#24292f;--color-prettylights-syntax-markup-deleted-text:#82071e;--color-prettylights-syntax-markup-deleted-bg:#ffebe9;--color-prettylights-syntax-markup-inserted-text:#116329;--color-prettylights-syntax-markup-inserted-bg:#dafbe1;--color-prettylights-syntax-markup-changed-text:#953800;--color-prettylights-syntax-markup-changed-bg:#ffd8b5;--color-prettylights-syntax-markup-ignored-text:#eaeef2;--color-prettylights-syntax-markup-ignored-bg:#0550ae;--color-prettylights-syntax-meta-diff-range:#8250df;--color-prettylights-syntax-brackethighlighter-angle:#57606a;--color-prettylights-syntax-sublimelinter-gutter-mark:#8c959f;--color-prettylights-syntax-constant-other-reference-link:#0a3069;--color-fg-default:#24292f;--color-fg-muted:#57606a;--color-fg-subtle:#6e7781;--color-canvas-default:#fff;--color-canvas-subtle:#f6f8fa;--color-border-default:#d0d7de;--color-border-muted:#d8dee4;--color-neutral-muted:rgba(175,184,193,.2);--color-accent-fg:#0969da;--color-accent-emphasis:#0969da;--color-attention-subtle:#fff8c5;--color-danger-fg:#cf222e;color-scheme:light}div#\:\$p>svg>foreignObject>section:where(.invert){--color-prettylights-syntax-comment:#8b949e;--color-prettylights-syntax-constant:#79c0ff;--color-prettylights-syntax-entity:#d2a8ff;--color-prettylights-syntax-storage-modifier-import:#c9d1d9;--color-prettylights-syntax-entity-tag:#7ee787;--color-prettylights-syntax-keyword:#ff7b72;--color-prettylights-syntax-string:#a5d6ff;--color-prettylights-syntax-variable:#ffa657;--color-prettylights-syntax-brackethighlighter-unmatched:#f85149;--color-prettylights-syntax-invalid-illegal-text:#f0f6fc;--color-prettylights-syntax-invalid-illegal-bg:#8e1519;--color-prettylights-syntax-carriage-return-text:#f0f6fc;--color-prettylights-syntax-carriage-return-bg:#b62324;--color-prettylights-syntax-string-regexp:#7ee787;--color-prettylights-syntax-markup-list:#f2cc60;--color-prettylights-syntax-markup-heading:#1f6feb;--color-prettylights-syntax-markup-italic:#c9d1d9;--color-prettylights-syntax-markup-bold:#c9d1d9;--color-prettylights-syntax-markup-deleted-text:#ffdcd7;--color-prettylights-syntax-markup-deleted-bg:#67060c;--color-prettylights-syntax-markup-inserted-text:#aff5b4;--color-prettylights-syntax-markup-inserted-bg:#033a16;--color-prettylights-syntax-markup-changed-text:#ffdfb6;--color-prettylights-syntax-markup-changed-bg:#5a1e02;--color-prettylights-syntax-markup-ignored-text:#c9d1d9;--color-prettylights-syntax-markup-ignored-bg:#1158c7;--color-prettylights-syntax-meta-diff-range:#d2a8ff;--color-prettylights-syntax-brackethighlighter-angle:#8b949e;--color-prettylights-syntax-sublimelinter-gutter-mark:#484f58;--color-prettylights-syntax-constant-other-reference-link:#a5d6ff;--color-fg-default:#c9d1d9;--color-fg-muted:#8b949e;--color-fg-subtle:#6e7681;--color-canvas-default:#0d1117;--color-canvas-subtle:#161b22;--color-border-default:#30363d;--color-border-muted:#21262d;--color-neutral-muted:hsla(215,8%,47%,.4);--color-accent-fg:#58a6ff;--color-accent-emphasis:#1f6feb;--color-attention-subtle:rgba(187,128,9,.15);--color-danger-fg:#f85149;color-scheme:dark}div#\:\$p>svg>foreignObject>section{-ms-text-size-adjust:100%;-webkit-text-size-adjust:100%;word-wrap:break-word;background-color:var(--color-canvas-default);color:var(--color-fg-default);font-family:-apple-system,BlinkMacSystemFont,Segoe 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.pl-mi2{background-color:var(--color-prettylights-syntax-markup-ignored-bg);color:var(--color-prettylights-syntax-markup-ignored-text)}div#\:\$p>svg>foreignObject>section .pl-mdr{color:var(--color-prettylights-syntax-meta-diff-range);font-weight:700}div#\:\$p>svg>foreignObject>section .pl-ba{color:var(--color-prettylights-syntax-brackethighlighter-angle)}div#\:\$p>svg>foreignObject>section .pl-sg{color:var(--color-prettylights-syntax-sublimelinter-gutter-mark)}div#\:\$p>svg>foreignObject>section .pl-corl{color:var(--color-prettylights-syntax-constant-other-reference-link);text-decoration:underline}div#\:\$p>svg>foreignObject>section g-emoji{display:inline-block;font-family:Apple Color Emoji,Segoe UI Emoji,Segoe UI Symbol;font-size:1em;font-style:normal!important;font-weight:var(--base-text-weight-normal,400);line-height:1;min-width:1ch;vertical-align:-.075em}div#\:\$p>svg>foreignObject>section g-emoji img{height:1em;width:1em}div#\:\$p>svg>foreignObject>section .task-list-item{list-style-type:none}div#\:\$p>svg>foreignObject>section .task-list-item label{font-weight:var(--base-text-weight-normal,400)}div#\:\$p>svg>foreignObject>section .task-list-item.enabled label{cursor:pointer}div#\:\$p>svg>foreignObject>section .task-list-item+.task-list-item{margin-top:4px}div#\:\$p>svg>foreignObject>section .task-list-item .handle{display:none}div#\:\$p>svg>foreignObject>section .task-list-item-checkbox{margin:0 .2em .25em -1.4em;vertical-align:middle}div#\:\$p>svg>foreignObject>section .contains-task-list:dir(rtl) .task-list-item-checkbox{margin:0 -1.6em .25em .2em}div#\:\$p>svg>foreignObject>section .contains-task-list{position:relative}div#\:\$p>svg>foreignObject>section .contains-task-list:focus-within .task-list-item-convert-container,div#\:\$p>svg>foreignObject>section .contains-task-list:hover .task-list-item-convert-container{clip:auto;display:block;height:24px;overflow:visible;width:auto}div#\:\$p>svg>foreignObject>section ::-webkit-calendar-picker-indicator{filter:invert(50%)}div#\:\$p>svg>foreignObject>section :is(h1,marp-h1){color:var(--h1-color);font-size:1.6em}div#\:\$p>svg>foreignObject>section :is(h1,marp-h1),div#\:\$p>svg>foreignObject>section :is(h2,marp-h2){border-bottom:none}div#\:\$p>svg>foreignObject>section :is(h2,marp-h2){font-size:1.3em}div#\:\$p>svg>foreignObject>section :is(h3,marp-h3){font-size:1.1em}div#\:\$p>svg>foreignObject>section :is(h4,marp-h4){font-size:1.05em}div#\:\$p>svg>foreignObject>section :is(h5,marp-h5){font-size:1em}div#\:\$p>svg>foreignObject>section :is(h6,marp-h6){font-size:.9em}div#\:\$p>svg>foreignObject>section :is(h1,marp-h1) strong,div#\:\$p>svg>foreignObject>section :is(h2,marp-h2) strong,div#\:\$p>svg>foreignObject>section :is(h3,marp-h3) strong,div#\:\$p>svg>foreignObject>section :is(h4,marp-h4) strong,div#\:\$p>svg>foreignObject>section :is(h5,marp-h5) strong,div#\:\$p>svg>foreignObject>section :is(h6,marp-h6) strong{color:var(--heading-strong-color);font-weight:inherit}div#\:\$p>svg>foreignObject>section :is(h1,marp-h1)::part(auto-scaling),div#\:\$p>svg>foreignObject>section :is(h2,marp-h2)::part(auto-scaling),div#\:\$p>svg>foreignObject>section :is(h3,marp-h3)::part(auto-scaling),div#\:\$p>svg>foreignObject>section :is(h4,marp-h4)::part(auto-scaling),div#\:\$p>svg>foreignObject>section :is(h5,marp-h5)::part(auto-scaling),div#\:\$p>svg>foreignObject>section :is(h6,marp-h6)::part(auto-scaling){max-height:563px}div#\:\$p>svg>foreignObject>section hr{height:0;padding-top:.25em}div#\:\$p>svg>foreignObject>section :is(pre,marp-pre){border:1px solid var(--color-border-default);line-height:1.15;overflow:visible}div#\:\$p>svg>foreignObject>section :is(pre,marp-pre)::part(auto-scaling){max-height:529px}div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs){color:var(--color-prettylights-syntax-storage-modifier-import)}div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-doctag),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-keyword),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-meta .hljs-keyword),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-template-tag),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-template-variable),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-type),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-variable.language_){color:var(--color-prettylights-syntax-keyword)}div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-title),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-title.class_),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-title.class_.inherited__),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-title.function_){color:var(--color-prettylights-syntax-entity)}div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-attr),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-attribute),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-literal),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-meta),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-number),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-operator),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-selector-attr),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-selector-class),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-selector-id),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-variable){color:var(--color-prettylights-syntax-constant)}div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-meta .hljs-string),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-regexp),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-string){color:var(--color-prettylights-syntax-string)}div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-built_in),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-symbol){color:var(--color-prettylights-syntax-variable)}div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-code),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-comment),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-formula){color:var(--color-prettylights-syntax-comment)}div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-name),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-quote),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-selector-pseudo),div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-selector-tag){color:var(--color-prettylights-syntax-entity-tag)}div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-subst){color:var(--color-prettylights-syntax-storage-modifier-import)}div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-section){color:var(--color-prettylights-syntax-markup-heading);font-weight:700}div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-bullet){color:var(--color-prettylights-syntax-markup-list)}div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-emphasis){color:var(--color-prettylights-syntax-markup-italic);font-style:italic}div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-strong){color:var(--color-prettylights-syntax-markup-bold);font-weight:700}div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-addition){background-color:var(--color-prettylights-syntax-markup-inserted-bg);color:var(--color-prettylights-syntax-markup-inserted-text)}div#\:\$p>svg>foreignObject>section :is(pre,marp-pre) :where(.hljs-deletion){background-color:var(--color-prettylights-syntax-markup-deleted-bg);color:var(--color-prettylights-syntax-markup-deleted-text)}div#\:\$p>svg>foreignObject>section footer,div#\:\$p>svg>foreignObject>section header{color:var(--header-footer-color);font-size:18px;left:30px;margin:0;position:absolute}div#\:\$p>svg>foreignObject>section header{top:21px}div#\:\$p>svg>foreignObject>section footer{bottom:21px}div#\:\$p>svg>foreignObject>section{--h1-color:#246;--header-footer-color:hsla(0,0%,40%,.75);--heading-strong-color:#48c;--paginate-color:#777;align-items:stretch;display:flex;flex-flow:column nowrap;font-size:29px;height:720px;justify-content:center;padding:78.5px;width:1280px}div#\:\$p>svg>foreignObject>section{--marpit-root-font-size:29px}div#\:\$p>svg>foreignObject>section:where(.invert){--h1-color:#cee7ff;--header-footer-color:hsla(0,0%,60%,.75);--heading-strong-color:#7bf;--paginate-color:#999}div#\:\$p>svg>foreignObject>section>:last-child,div#\:\$p>svg>foreignObject>section[data-footer]>:nth-last-child(2){margin-bottom:0}div#\:\$p>svg>foreignObject>section>:first-child,div#\:\$p>svg>foreignObject>section>header:first-child+*{margin-top:0}div#\:\$p>svg>foreignObject>section:after{bottom:21px;color:var(--paginate-color);font-size:24px;padding:0;position:absolute;right:30px}div#\:\$p>svg>foreignObject>section:after{--marpit-root-font-size:24px}div#\:\$p>svg>foreignObject>section[data-color] :is(h1,marp-h1),div#\:\$p>svg>foreignObject>section[data-color] :is(h2,marp-h2),div#\:\$p>svg>foreignObject>section[data-color] :is(h3,marp-h3),div#\:\$p>svg>foreignObject>section[data-color] :is(h4,marp-h4),div#\:\$p>svg>foreignObject>section[data-color] :is(h5,marp-h5),div#\:\$p>svg>foreignObject>section[data-color] :is(h6,marp-h6){color:currentcolor}div#\:\$p>svg>foreignObject>section img[data-marp-twemoji]{background:transparent;height:1em;margin:0 .05em 0 .1em;vertical-align:-.1em;width:1em} -/* @theme dataplant_marp-theme-CMR */div#\:\$p>svg>foreignObject>section{background:url("https://raw.githubusercontent.com/nfdi4plants/nfdi4plants.knowledgebase/5dba3b88b4f9eada59064a5eed60b5a9dca21ef9/src/docs/img/_logos/DataPLANT/DataPLANT_logo_square_bg_transparent.svg"),url("https://mirrors.creativecommons.org/presskit/buttons/88x31/svg/by.svg");background-repeat:no-repeat;background-size:3%,5%;background-position:2% 99%,6.5% 99%;background-color:white;font-size:30px;font-family:Calibri,sans-serif;color:#2D3E50}div#\:\$p>svg>foreignObject>section{--marpit-root-font-size:30px}div#\:\$p>svg>foreignObject>section header{top:30px;height:60px}div#\:\$p>svg>foreignObject>section footer{height:60px;padding:10px;bottom:00px}div#\:\$p>svg>foreignObject>section :is(h1,marp-h1){font-size:54px;font-family:Calibri,sans-serif;color:#A2A1A1;text-align:center;margin:50px;position:fixed;top:40px;left:0;right:0}div#\:\$p>svg>foreignObject>section :is(h1,marp-h1) :is(span,marp-span){font-size:35px;font-family:Calibri,sans-serif;font-style:italic;color:#0BB5DD;text-align:center}div#\:\$p>svg>foreignObject>section :is(h2,marp-h2){font-size:35px;font-family:Calibri,sans-serif;color:#2D3E50}div#\:\$p>svg>foreignObject>section code{ +/* @theme dataplant_marp-theme-CMR */div#\:\$p>svg>foreignObject>section{background:url("https://raw.githubusercontent.com/nfdi4plants/nfdi4plants.knowledgebase/5dba3b88b4f9eada59064a5eed60b5a9dca21ef9/src/docs/img/logos/DataPLANT/DataPLANT_logo_square_bg_transparent.svg"),url("https://mirrors.creativecommons.org/presskit/buttons/88x31/svg/by.svg");background-repeat:no-repeat;background-size:3%,5%;background-position:2% 99%,6.5% 99%;background-color:white;font-size:30px;font-family:Calibri,sans-serif;color:#2D3E50}div#\:\$p>svg>foreignObject>section{--marpit-root-font-size:30px}div#\:\$p>svg>foreignObject>section header{top:30px;height:60px}div#\:\$p>svg>foreignObject>section footer{height:60px;padding:10px;bottom:00px}div#\:\$p>svg>foreignObject>section :is(h1,marp-h1){font-size:54px;font-family:Calibri,sans-serif;color:#A2A1A1;text-align:center;margin:50px;position:fixed;top:40px;left:0;right:0}div#\:\$p>svg>foreignObject>section :is(h1,marp-h1) :is(span,marp-span){font-size:35px;font-family:Calibri,sans-serif;font-style:italic;color:#0BB5DD;text-align:center}div#\:\$p>svg>foreignObject>section :is(h2,marp-h2){font-size:35px;font-family:Calibri,sans-serif;color:#2D3E50}div#\:\$p>svg>foreignObject>section code{ /* font-size: 20px; */ /* color: #c21f3a; */}div#\:\$p>svg>foreignObject>section{font-size:30px;font-family:Calibri,sans-serif;color:#2D3E50;text-align:start /* padding: 40px; */}div#\:\$p>svg>foreignObject>section{--marpit-root-font-size:30px} @@ -56,7 +56,7 @@ /* debug */div#\:\$p>svg>foreignObject>section.split .ldiv,div#\:\$p>svg>foreignObject>section.split .mdiv,div#\:\$p>svg>foreignObject>section.split .rdiv,div#\:\$p>svg>foreignObject>section.split :is(h3,marp-h3){border:hidden 1.5pt dashed dimgray}div#\:\$p>svg>foreignObject>section.split :is(h3,marp-h3){grid-area:slideheading;font-size:50px}div#\:\$p>svg>foreignObject>section.split .ldiv{grid-area:leftpanel}div#\:\$p>svg>foreignObject>section.split .mdiv{grid-area:midpanel}div#\:\$p>svg>foreignObject>section.split .rdiv{grid-area:rightpanel} /*If you want to see the border of the columns, you can remove the "hidden" after "border:". */div#\:\$p>svg>foreignObject>section[data-marpit-advanced-background=background]{columns:initial!important;display:block!important;padding:0!important}div#\:\$p>svg>foreignObject>section[data-marpit-advanced-background=background]:after,div#\:\$p>svg>foreignObject>section[data-marpit-advanced-background=background]:before,div#\:\$p>svg>foreignObject>section[data-marpit-advanced-background=content]:after,div#\:\$p>svg>foreignObject>section[data-marpit-advanced-background=content]:before{display:none!important}div#\:\$p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]{all:initial;display:flex;flex-direction:row;height:100%;overflow:hidden;width:100%}div#\:\$p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container][data-marpit-advanced-background-direction=vertical]{flex-direction:column}div#\:\$p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split]>div[data-marpit-advanced-background-container]{width:var(--marpit-advanced-background-split,50%)}div#\:\$p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split=right]>div[data-marpit-advanced-background-container]{margin-left:calc(100% - var(--marpit-advanced-background-split, 50%))}div#\:\$p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]>figure{all:initial;background-position:center;background-repeat:no-repeat;background-size:cover;flex:auto;margin:0}div#\:\$p>svg>foreignObject>section[data-marpit-advanced-background=content],div#\:\$p>svg>foreignObject>section[data-marpit-advanced-background=pseudo]{background:transparent!important}div#\:\$p>svg>foreignObject>section[data-marpit-advanced-background=pseudo],div#\:\$p>svg[data-marpit-svg]>foreignObject[data-marpit-advanced-background=pseudo]{pointer-events:none!important}div#\:\$p>svg>foreignObject>section[data-marpit-advanced-background-split]{width:100%;height:100%}


    -

    +

    FAIR research in your hands

    @@ -124,7 +124,7 @@




    -

    +

    --- +

    --- ## Tutor prep: diff --git a/docs/teaching-materials/units/tutorial_IntroCLI/tutorial_IntroCLI.html b/docs/teaching-materials/units/tutorial_IntroCLI/tutorial_IntroCLI.html index 46638d444..0d2437730 100644 --- a/docs/teaching-materials/units/tutorial_IntroCLI/tutorial_IntroCLI.html +++ b/docs/teaching-materials/units/tutorial_IntroCLI/tutorial_IntroCLI.html @@ -18,7 +18,7 @@ /* Center images in the main section ("block") */div#p>svg>foreignObject>section p img{display:block;margin:0px auto 0px auto /* top right bottom left*/}div#p>svg>foreignObject>section img.emoji{display:inline} -/* Styling page number */div#p>svg>foreignObject>section:after{font-family:Calibri,sans-serif;font-size:20px;color:#2D3E50}div#p>svg>foreignObject>section:after{--marpit-root-font-size:20px}div#p>svg>foreignObject>section footer{height:30px;padding:10px;bottom:00px}div#p>svg>foreignObject>section #footer-img1{height:30px;padding-left:0px}div#p>svg>foreignObject>section #footer-img2{height:30px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section #footer-img3{height:20px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]{columns:initial!important;display:block!important;padding:0!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:before,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:before{display:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]{all:initial;display:flex;flex-direction:row;height:100%;overflow:hidden;width:100%}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container][data-marpit-advanced-background-direction=vertical]{flex-direction:column}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split]>div[data-marpit-advanced-background-container]{width:var(--marpit-advanced-background-split,50%)}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split=right]>div[data-marpit-advanced-background-container]{margin-left:calc(100% - var(--marpit-advanced-background-split, 50%))}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]>figure{all:initial;background-position:center;background-repeat:no-repeat;background-size:cover;flex:auto;margin:0}div#p>svg>foreignObject>section[data-marpit-advanced-background=content],div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo]{background:transparent!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo],div#p>svg[data-marpit-svg]>foreignObject[data-marpit-advanced-background=pseudo]{pointer-events:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background-split]{width:100%;height:100%}

    +/* Styling page number */div#p>svg>foreignObject>section:after{font-family:Calibri,sans-serif;font-size:20px;color:#2D3E50}div#p>svg>foreignObject>section:after{--marpit-root-font-size:20px}div#p>svg>foreignObject>section footer{height:30px;padding:10px;bottom:00px}div#p>svg>foreignObject>section #footer-img1{height:30px;padding-left:0px}div#p>svg>foreignObject>section #footer-img2{height:30px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section #footer-img3{height:20px;padding-left:20px;opacity:0.5}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]{columns:initial!important;display:block!important;padding:0!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=background]:before,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:after,div#p>svg>foreignObject>section[data-marpit-advanced-background=content]:before{display:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]{all:initial;display:flex;flex-direction:row;height:100%;overflow:hidden;width:100%}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container][data-marpit-advanced-background-direction=vertical]{flex-direction:column}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split]>div[data-marpit-advanced-background-container]{width:var(--marpit-advanced-background-split,50%)}div#p>svg>foreignObject>section[data-marpit-advanced-background=background][data-marpit-advanced-background-split=right]>div[data-marpit-advanced-background-container]{margin-left:calc(100% - var(--marpit-advanced-background-split, 50%))}div#p>svg>foreignObject>section[data-marpit-advanced-background=background]>div[data-marpit-advanced-background-container]>figure{all:initial;background-position:center;background-repeat:no-repeat;background-size:cover;flex:auto;margin:0}div#p>svg>foreignObject>section[data-marpit-advanced-background=content],div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo]{background:transparent!important}div#p>svg>foreignObject>section[data-marpit-advanced-background=pseudo],div#p>svg[data-marpit-svg]>foreignObject[data-marpit-advanced-background=pseudo]{pointer-events:none!important}div#p>svg>foreignObject>section[data-marpit-advanced-background-split]{width:100%;height:100%}

    The command line

    Find the command-line interface (CLI) on your system.

      @@ -27,15 +27,15 @@

      The command line


    > Note: In our tutorials we sometimes use "terminal", "command-line interface (CLI)" and "powershell" interchangeably. - +
    -
    +

    Code examples

    This is a copy/paste friendly code block

    Copy the following line to your terminal and hit enter:

    echo "Hello. I am a code block"
    - +

    Source to slide(s)

    ../../bricks/tutorial_IntroCLI-The_command_line.md

    Source to slide(s)

    ../../bricks/tutorial_IntroCLI-Code_examples.md

    Source to slide(s)

    ../../bricks/tutorial_arc_access.md

    Source to slide(s)

    ../../bricks/tutorial_arc_access-authentication.md

    Source to slide(s)

    ../../bricks/tutorial_arc_add-Adding_metadata_to_your_ARC.md

    Source to slide(s)

    ../../bricks/tutorial_arc_add-ISA_investigation.md

    Source to slide(s)

    ../../bricks/tutorial_arc_add-ISA_studies_and_assays.md

    Source to slide(s)

    ../../bricks/tutorial_arc_add-Add_a_study.md

    Source to slide(s)

    ../../bricks/tutorial_arc_add-Add_an_assay.md

    Source to slide(s)

    ../../bricks/tutorial_arc_add-subdirectories.md

    Source to slide(s)

    ../../bricks/tutorial_arc_add-Grow_your_ARC.md

    Source to slide(s)

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    ../../bricks/tutorial_arc_add-ISA_investigation.md

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    Setting a git user

    Some users might want to use different signatures for different repositories, e.g. for developing software on GitHub and working on ARCs on DataPLANT's DataHUB. Besides your global git configuration, you can store the information you want to use for editing ARCs within the ARC Commander config:

    arc config set -g -n "general.gitname" -v "Name of choice"
 arc config set -g -n "general.gitemail" -v "Email of choice"
    - +
    -
    +

    Transfer from global settings

    To transfer the information from the global ARC Commander config to the local git config of the ARC use

    arc config setgituser
    - +

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    ../../bricks/tutorial_arc_config-Set.md

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    ../../bricks/tutorial_arc_init-ARC_initialization.md

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    ../../bricks/tutorial_arc_init-ARC_initialization.md

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    ../../bricks/tutorial_arc_init-Your_fresh_ARC.md

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    ../../bricks/tutorial_arc_title.md

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    ../../bricks/tutorial_arc_installation.md

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    ../../bricks/tutorial_arc_sync-Connect.md

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    ../../bricks/tutorial_git_config-title.md

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    ../../bricks/tutorial_swate_firstSteps-First_steps.md

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    ../../bricks/tutorial_swate_firstSteps-Create_a_Swate_table.md

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