add nextflow d30e48d

nextflow/docs/_static/dag.mmd

@@ -0,0 +1,39 @@
+%%{
+    init: {
+        'theme': 'base',
+        'themeVariables': {
+            'primaryColor': '#B6ECE2',
+            'primaryTextColor': '#160F26',
+            'primaryBorderColor': '#065647',
+            'lineColor': '#545555',
+            'clusterBkg': '#BABCBD22',
+            'clusterBorder': '#DDDEDE',
+            'fontFamily': 'arial'
+        }
+    }
+}%%
+flowchart TB
+    subgraph " "
+    v0["Channel.fromFilePairs"]
+    v1["transcriptome"]
+    v7["config"]
+    end
+    subgraph RNASEQ
+    v2([INDEX])
+    v3([FASTQC])
+    v4([QUANT])
+    end
+    v8([MULTIQC])
+    subgraph " "
+    v9[" "]
+    end
+    v5(( ))
+    v0 --> v3
+    v0 --> v4
+    v1 --> v2
+    v2 --> v4
+    v3 --> v5
+    v4 --> v5
+    v7 --> v8
+    v5 --> v8
+    v8 --> v9

nextflow/docs/_static/seqera-logo-dark.svg

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nextflow/docs/_static/theme.css

@@ -0,0 +1,256 @@
+/* Inter font */
+@import url('https://fonts.googleapis.com/css2?family=Inter:wght@400;700&display=swap');
+
+/* Degular font */
+@font-face {
+    font-family: "Degular";
+    src: url('degular/Degular-Regular.woff2');
+    src: url('degular/Degular-Regular.woff2') format('woff2'),
+         url('degular/Degular-Regular.woff') format('woff');
+    font-weight: normal;
+    font-style: normal;
+}
+@font-face {
+    font-family: "Degular";
+    src: url('degular/Degular-Italic.woff2');
+    src: url('degular/Degular-Italic.woff2') format('woff2'),
+         url('degular/Degular-Italic.woff') format('woff');
+    font-weight: normal;
+    font-style: italic;
+}
+@font-face {
+    font-family: "Degular";
+    src: url('degular/Degular-Bold.woff2');
+    src: url('degular/Degular-Bold.woff2') format('woff2'),
+         url('degular/Degular-Bold.woff') format('woff');
+    font-weight: bold;
+    font-style: normal;
+}
+@font-face {
+    font-family: "Degular";
+    src: url('degular/Degular-BoldItalic.woff2');
+    src: url('degular/Degular-BoldItalic.woff2') format('woff2'),
+         url('degular/Degular-BoldItalic.woff') format('woff');
+    font-weight: bold;
+    font-style: italic;
+}
+
+/* fonts */
+body {
+    font-family: 'Inter', sans-serif;
+}
+
+.btn {
+    font-family: 'Inter', sans-serif;
+}
+
+.rst-content .toctree-wrapper>p.caption,
+h1,
+h2,
+h3,
+h4,
+h5,
+h6,
+legend {
+    font-family: 'Degular', sans-serif;
+}
+
+/* colors */
+.rst-content .danger {
+    background: #FEEDEC;
+}
+
+.rst-content .danger .admonition-title {
+    background: #C3514D;
+}
+
+.rst-content .warning {
+    background: #FDF0E9;
+}
+
+.rst-content .warning .admonition-title {
+    background: #BC6437;
+}
+
+.rst-content .note {
+    background: #E8F2FF;
+}
+
+.rst-content .note .admonition-title {
+    background: #3787E5;
+}
+
+.rst-content .tip {
+    background: #E2F7F3;
+}
+
+.rst-content .tip .admonition-title {
+    background: #0CAE8E;
+}
+
+a, a:visited {
+    color: #3787E5;
+}
+
+a:hover {
+    color: #77B5FE;
+}
+
+.rst-content code,
+.rst-content tt,
+code {
+    color: #C3514D;
+}
+
+.wy-menu-vertical header,
+.wy-menu-vertical p.caption {
+    color: #0DC09D;
+}
+
+.wy-menu-vertical a {
+    color: #EAEBEB;
+}
+
+.wy-menu-vertical a:hover {
+    background-color: #7B7B7B;
+}
+
+.wy-menu-vertical a:active {
+    background-color: #0DC09D;
+}
+
+.wy-side-nav-search {
+    background-color: #0DC09D;
+}
+
+.wy-side-nav-search input[type=text] {
+    border-color: #0DC09D;
+}
+
+.wy-side-nav-search img {
+    background-color: #0DC09D;
+}
+
+.wy-nav-side {
+    background: #160F26;
+}
+
+.wy-nav-top {
+    background: #0DC09D;
+}
+
+.wy-nav-top a {
+    color: #fff;
+}
+
+.wy-nav-top img {
+    width: auto;
+    background-color: inherit;
+    border-radius: unset;
+}
+
+footer {
+    color: #7B7B7B;
+}
+
+#search-results .context {
+    color: #7B7B7B;
+}
+
+.rst-content code.literal,
+.rst-content tt.literal {
+    color: #C3514D;
+}
+
+/* Custom footer with logo */
+.nav-footer-logo {
+    width: 300px;
+    margin-top: 2rem;
+    border-top: 1px solid #7B7B7B;
+    text-align: center;
+    font-size: 80%;
+}
+
+.nav-footer-logo a {
+    display: block;
+    padding: 2rem 0 0.5rem;
+    color: #7B7B7B;
+}
+
+.nav-footer-logo a img {
+    margin-top: 0.5rem;
+    width: 60%;
+}
+
+/* Version change admonitions */
+div.deprecated,
+div.versionadded,
+div.versionchanged {
+    border-left: 0.2rem solid;
+    border-radius: 0.25rem;
+    box-shadow: 0 0.2rem 0.5rem var(--pst-color-shadow),0 0 0.0625rem var(--pst-color-shadow)!important;
+    margin: 1rem auto;
+    overflow: hidden;
+    padding: 0.2rem 0.6rem;
+    page-break-inside: avoid;
+    position: relative;
+    transition: color .25s,background-color .25s,border-color .25s;
+    vertical-align: middle;
+}
+div.deprecated>p,
+div.versionadded>p,
+div.versionchanged>p {
+    margin-top: 0.5rem;
+    margin-bottom: 0.5rem;
+}
+div.deprecated>p:first-child::before,
+div.versionadded>p:first-child::before,
+div.versionchanged>p:first-child::before {
+    font-family: FontAwesome;
+    display: inline-block;
+    font-style: normal;
+    font-weight: 400;
+    line-height: 1;
+    text-decoration: inherit;
+    margin-right: 0.5rem;
+    content: "";
+    -webkit-font-smoothing: antialiased;
+    padding: 0.4rem 0.6rem;
+    margin: -0.2rem 0rem -0.2rem -0.6rem;
+}
+div.versionadded                         { border-color: #0CAE8E; background-color: #E2F7F3; }
+div.versionadded p:first-child::before   { color: #0CAE8E; }
+div.versionchanged                       { border-color: #BC6437; background-color: #FDF0E9; }
+div.versionchanged p:first-child::before { color: #BC6437; }
+div.deprecated                           { border-color: #C3514D; background-color: #FEEDEC; }
+div.deprecated p:first-child::before     { color: #C3514D; }
+
+/* Version in sidebar */
+.sidebar_version {
+    margin-top: 0.5rem;
+    font-size: 0.8rem;
+    color: #160F26;
+}
+.sidebar_version samp {
+    font-size: 0.6rem;
+}
+.sidebar_version select {
+    background-color: #0DC09D;
+    box-shadow: none;
+    color: #160F26;
+    border: 1px solid #160f26a3;
+    border-radius: 1rem;
+    padding: 0.15rem 0.2rem;
+    font-size: 0.7rem;
+    margin-left: 0.5rem;
+}
+
+/* Site-wide announcement banner */
+.admonition.site-banner {
+    background: #E2F7F3;
+    border-left: none;
+}
+
+.admonition.site-banner .admonition-title {
+    background: #0CAE8E;
+}