add an example. #96

shenwei356 · Apr 11, 2024 · 352f306 · 352f306
1 parent 74672b3
commit 352f306
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Showing 4 changed files with 20 additions and 9 deletions.
diff --git a/search/search_index.json b/search/search_index.json
diff --git a/sitemap.xml b/sitemap.xml
@@ -2,42 +2,42 @@
 <urlset xmlns="http://www.sitemaps.org/schemas/sitemap/0.9">
     <url>
          <loc>https://bioinf.shenwei.me/taxonkit/</loc>
-         <lastmod>2024-03-06</lastmod>
+         <lastmod>2024-04-11</lastmod>
          <changefreq>daily</changefreq>
     </url>
     <url>
          <loc>https://bioinf.shenwei.me/taxonkit/bioinf/</loc>
-         <lastmod>2024-03-06</lastmod>
+         <lastmod>2024-04-11</lastmod>
          <changefreq>daily</changefreq>
     </url>
     <url>
          <loc>https://bioinf.shenwei.me/taxonkit/chinese-dev/</loc>
-         <lastmod>2024-03-06</lastmod>
+         <lastmod>2024-04-11</lastmod>
          <changefreq>daily</changefreq>
     </url>
     <url>
          <loc>https://bioinf.shenwei.me/taxonkit/chinese/</loc>
-         <lastmod>2024-03-06</lastmod>
+         <lastmod>2024-04-11</lastmod>
          <changefreq>daily</changefreq>
     </url>
     <url>
          <loc>https://bioinf.shenwei.me/taxonkit/download/</loc>
-         <lastmod>2024-03-06</lastmod>
+         <lastmod>2024-04-11</lastmod>
          <changefreq>daily</changefreq>
     </url>
     <url>
          <loc>https://bioinf.shenwei.me/taxonkit/tutorial/</loc>
-         <lastmod>2024-03-06</lastmod>
+         <lastmod>2024-04-11</lastmod>
          <changefreq>daily</changefreq>
     </url>
     <url>
          <loc>https://bioinf.shenwei.me/taxonkit/usage/</loc>
-         <lastmod>2024-03-06</lastmod>
+         <lastmod>2024-04-11</lastmod>
          <changefreq>daily</changefreq>
     </url>
     <url>
          <loc>https://bioinf.shenwei.me/taxonkit/bench/</loc>
-         <lastmod>2024-03-06</lastmod>
+         <lastmod>2024-04-11</lastmod>
          <changefreq>daily</changefreq>
     </url>
 </urlset>
diff --git a/sitemap.xml.gz b/sitemap.xml.gz
diff --git a/usage/index.html b/usage/index.html
@@ -1494,6 +1494,17 @@ <h2 id="reformat">reformat<a class="headerlink" href="#reformat" title="Permanen
 <span class="m">1327037</span><span class="w">   </span><span class="m">10239</span><span class="w">    </span><span class="m">2731618</span><span class="w">   </span><span class="m">2731619</span><span class="w">   </span><span class="m">28883</span><span class="w">     </span><span class="m">10699</span><span class="w">               </span><span class="m">1327037</span>
 <span class="m">92489</span><span class="w">     </span><span class="m">2</span><span class="w">        </span><span class="m">1224</span><span class="w">      </span><span class="m">1236</span><span class="w">      </span><span class="m">91347</span><span class="w">     </span><span class="m">1903409</span><span class="w">   </span><span class="m">551</span><span class="w">       </span><span class="m">796334</span>
 <span class="m">1458427</span><span class="w">   </span><span class="m">2</span><span class="w">        </span><span class="m">1224</span><span class="w">      </span><span class="m">28216</span><span class="w">     </span><span class="m">80840</span><span class="w">     </span><span class="m">80864</span><span class="w">     </span><span class="m">2490452</span><span class="w">   </span><span class="m">1458425</span>
+
+<span class="c1"># both node name and taxids</span>
+<span class="nb">echo</span><span class="w"> </span><span class="m">562</span><span class="w"> </span><span class="se">\</span>
+<span class="w">    </span><span class="p">|</span><span class="w"> </span>taxonkit<span class="w"> </span>reformat<span class="w"> </span>-I<span class="w"> </span><span class="m">1</span><span class="w"> </span>-t<span class="w"> </span><span class="se">\</span>
+<span class="w">    </span><span class="p">|</span><span class="w"> </span>csvtk<span class="w"> </span>-H<span class="w"> </span>-t<span class="w"> </span>sep<span class="w"> </span>-f<span class="w"> </span><span class="m">2</span><span class="w"> </span>-s<span class="w"> </span><span class="s1">&#39;;&#39;</span><span class="w"> </span>-R<span class="w"> </span><span class="se">\</span>
+<span class="w">    </span><span class="p">|</span><span class="w"> </span>csvtk<span class="w"> </span>-H<span class="w"> </span>-t<span class="w"> </span>sep<span class="w"> </span>-f<span class="w"> </span><span class="m">2</span><span class="w"> </span>-s<span class="w"> </span><span class="s1">&#39;;&#39;</span><span class="w"> </span>-R<span class="w"> </span><span class="se">\</span>
+<span class="w">    </span><span class="p">|</span><span class="w"> </span>csvtk<span class="w"> </span>add-header<span class="w"> </span>-t<span class="w"> </span>-n<span class="w"> </span><span class="s2">&quot;taxid,kingdom,phylum,class,order,family,genus,species,kingdom_taxid,phylum_taxid,class_taxid,order_taxid,family_taxid,genus_taxid,species_taxid&quot;</span><span class="w"> </span><span class="se">\</span>
+<span class="w">    </span><span class="p">|</span><span class="w"> </span>csvtk<span class="w"> </span>pretty<span class="w"> </span>-t
+taxid<span class="w">   </span>kingdom<span class="w">    </span>phylum<span class="w">           </span>class<span class="w">                 </span>order<span class="w">              </span>family<span class="w">               </span>genus<span class="w">         </span>species<span class="w">            </span>kingdom_taxid<span class="w">   </span>phylum_taxid<span class="w">   </span>class_taxid<span class="w">   </span>order_taxid<span class="w">   </span>family_taxid<span class="w">   </span>genus_taxid<span class="w">   </span>species_taxid
+-----<span class="w">   </span>--------<span class="w">   </span>--------------<span class="w">   </span>-------------------<span class="w">   </span>----------------<span class="w">   </span>------------------<span class="w">   </span>-----------<span class="w">   </span>----------------<span class="w">   </span>-------------<span class="w">   </span>------------<span class="w">   </span>-----------<span class="w">   </span>-----------<span class="w">   </span>------------<span class="w">   </span>-----------<span class="w">   </span>-------------
+<span class="m">562</span><span class="w">     </span>Bacteria<span class="w">   </span>Pseudomonadota<span class="w">   </span>Gammaproteobacteria<span class="w">   </span>Enterobacterales<span class="w">   </span>Enterobacteriaceae<span class="w">   </span>Escherichia<span class="w">   </span>Escherichia<span class="w"> </span>coli<span class="w">   </span><span class="m">2</span><span class="w">               </span><span class="m">1224</span><span class="w">           </span><span class="m">1236</span><span class="w">          </span><span class="m">91347</span><span class="w">         </span><span class="m">543</span><span class="w">            </span><span class="m">561</span><span class="w">           </span><span class="m">562</span>
 </code></pre></div>
 
 </li>