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fixing vulnerability
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@pschwllr
pschwllr committed Aug 11, 2021
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3 changes: 2 additions & 1 deletion docs/Gemfile
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Expand Up @@ -8,4 +8,5 @@ gem "jekyll", "~> 3.7"
gem "kramdown", ">= 2.3.1"
gem "nokogiri", ">= 1.11.4"
gem "rexml", ">= 3.2.5"
gem "jekyll-remote-theme"
gem "jekyll-remote-theme"
gem "addressable", ">= 2.8.0"
117 changes: 64 additions & 53 deletions docs/Gemfile.lock
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@@ -1,13 +1,13 @@
GEM
remote: https://rubygems.org/
specs:
activesupport (6.0.3.7)
activesupport (6.0.4)
concurrent-ruby (~> 1.0, >= 1.0.2)
i18n (>= 0.7, < 2)
minitest (~> 5.1)
tzinfo (~> 1.1)
zeitwerk (~> 2.2, >= 2.2.2)
addressable (2.7.0)
addressable (2.8.0)
public_suffix (>= 2.0.2, < 5.0)
coffee-script (2.4.1)
coffee-script-source
Expand All @@ -16,8 +16,8 @@ GEM
colorator (1.1.0)
commonmarker (0.17.13)
ruby-enum (~> 0.5)
concurrent-ruby (1.1.8)
dnsruby (1.61.5)
concurrent-ruby (1.1.9)
dnsruby (1.61.7)
simpleidn (~> 0.1)
em-websocket (0.5.2)
eventmachine (>= 0.12.9)
Expand All @@ -26,20 +26,30 @@ GEM
ffi (>= 1.15.0)
eventmachine (1.2.7)
execjs (2.8.1)
faraday (1.4.1)
faraday (1.7.0)
faraday-em_http (~> 1.0)
faraday-em_synchrony (~> 1.0)
faraday-excon (~> 1.1)
faraday-httpclient (~> 1.0.1)
faraday-net_http (~> 1.0)
faraday-net_http_persistent (~> 1.1)
faraday-patron (~> 1.0)
faraday-rack (~> 1.0)
multipart-post (>= 1.2, < 3)
ruby2_keywords (>= 0.0.4)
faraday-em_http (1.0.0)
faraday-em_synchrony (1.0.0)
faraday-excon (1.1.0)
faraday-httpclient (1.0.1)
faraday-net_http (1.0.1)
faraday-net_http_persistent (1.1.0)
ffi (1.15.0)
faraday-net_http_persistent (1.2.0)
faraday-patron (1.0.0)
faraday-rack (1.0.0)
ffi (1.15.3)
forwardable-extended (2.6.0)
gemoji (3.0.1)
github-pages (214)
github-pages-health-check (= 1.17.0)
github-pages (218)
github-pages-health-check (= 1.17.2)
jekyll (= 3.9.0)
jekyll-avatar (= 0.7.0)
jekyll-coffeescript (= 1.1.1)
Expand All @@ -59,19 +69,19 @@ GEM
jekyll-seo-tag (= 2.7.1)
jekyll-sitemap (= 1.4.0)
jekyll-swiss (= 1.0.0)
jekyll-theme-architect (= 0.1.1)
jekyll-theme-cayman (= 0.1.1)
jekyll-theme-dinky (= 0.1.1)
jekyll-theme-hacker (= 0.1.2)
jekyll-theme-leap-day (= 0.1.1)
jekyll-theme-merlot (= 0.1.1)
jekyll-theme-midnight (= 0.1.1)
jekyll-theme-minimal (= 0.1.1)
jekyll-theme-modernist (= 0.1.1)
jekyll-theme-primer (= 0.5.4)
jekyll-theme-slate (= 0.1.1)
jekyll-theme-tactile (= 0.1.1)
jekyll-theme-time-machine (= 0.1.1)
jekyll-theme-architect (= 0.2.0)
jekyll-theme-cayman (= 0.2.0)
jekyll-theme-dinky (= 0.2.0)
jekyll-theme-hacker (= 0.2.0)
jekyll-theme-leap-day (= 0.2.0)
jekyll-theme-merlot (= 0.2.0)
jekyll-theme-midnight (= 0.2.0)
jekyll-theme-minimal (= 0.2.0)
jekyll-theme-modernist (= 0.2.0)
jekyll-theme-primer (= 0.6.0)
jekyll-theme-slate (= 0.2.0)
jekyll-theme-tactile (= 0.2.0)
jekyll-theme-time-machine (= 0.2.0)
jekyll-titles-from-headings (= 0.5.3)
jemoji (= 0.12.0)
kramdown (= 2.3.1)
Expand All @@ -82,7 +92,7 @@ GEM
nokogiri (>= 1.10.4, < 2.0)
rouge (= 3.26.0)
terminal-table (~> 1.4)
github-pages-health-check (1.17.0)
github-pages-health-check (1.17.2)
addressable (~> 2.3)
dnsruby (~> 1.60)
octokit (~> 4.0)
Expand Down Expand Up @@ -152,45 +162,45 @@ GEM
jekyll-sitemap (1.4.0)
jekyll (>= 3.7, < 5.0)
jekyll-swiss (1.0.0)
jekyll-theme-architect (0.1.1)
jekyll (~> 3.5)
jekyll-theme-architect (0.2.0)
jekyll (> 3.5, < 5.0)
jekyll-seo-tag (~> 2.0)
jekyll-theme-cayman (0.1.1)
jekyll (~> 3.5)
jekyll-theme-cayman (0.2.0)
jekyll (> 3.5, < 5.0)
jekyll-seo-tag (~> 2.0)
jekyll-theme-dinky (0.1.1)
jekyll (~> 3.5)
jekyll-theme-dinky (0.2.0)
jekyll (> 3.5, < 5.0)
jekyll-seo-tag (~> 2.0)
jekyll-theme-hacker (0.1.2)
jekyll-theme-hacker (0.2.0)
jekyll (> 3.5, < 5.0)
jekyll-seo-tag (~> 2.0)
jekyll-theme-leap-day (0.1.1)
jekyll (~> 3.5)
jekyll-theme-leap-day (0.2.0)
jekyll (> 3.5, < 5.0)
jekyll-seo-tag (~> 2.0)
jekyll-theme-merlot (0.1.1)
jekyll (~> 3.5)
jekyll-theme-merlot (0.2.0)
jekyll (> 3.5, < 5.0)
jekyll-seo-tag (~> 2.0)
jekyll-theme-midnight (0.1.1)
jekyll (~> 3.5)
jekyll-theme-midnight (0.2.0)
jekyll (> 3.5, < 5.0)
jekyll-seo-tag (~> 2.0)
jekyll-theme-minimal (0.1.1)
jekyll (~> 3.5)
jekyll-theme-minimal (0.2.0)
jekyll (> 3.5, < 5.0)
jekyll-seo-tag (~> 2.0)
jekyll-theme-modernist (0.1.1)
jekyll (~> 3.5)
jekyll-theme-modernist (0.2.0)
jekyll (> 3.5, < 5.0)
jekyll-seo-tag (~> 2.0)
jekyll-theme-primer (0.5.4)
jekyll-theme-primer (0.6.0)
jekyll (> 3.5, < 5.0)
jekyll-github-metadata (~> 2.9)
jekyll-seo-tag (~> 2.0)
jekyll-theme-slate (0.1.1)
jekyll (~> 3.5)
jekyll-theme-slate (0.2.0)
jekyll (> 3.5, < 5.0)
jekyll-seo-tag (~> 2.0)
jekyll-theme-tactile (0.1.1)
jekyll (~> 3.5)
jekyll-theme-tactile (0.2.0)
jekyll (> 3.5, < 5.0)
jekyll-seo-tag (~> 2.0)
jekyll-theme-time-machine (0.1.1)
jekyll (~> 3.5)
jekyll-theme-time-machine (0.2.0)
jekyll (> 3.5, < 5.0)
jekyll-seo-tag (~> 2.0)
jekyll-titles-from-headings (0.5.3)
jekyll (>= 3.3, < 5.0)
Expand All @@ -205,19 +215,19 @@ GEM
kramdown-parser-gfm (1.1.0)
kramdown (~> 2.0)
liquid (4.0.3)
listen (3.5.1)
listen (3.6.0)
rb-fsevent (~> 0.10, >= 0.10.3)
rb-inotify (~> 0.9, >= 0.9.10)
mercenary (0.3.6)
mini_portile2 (2.5.1)
mini_portile2 (2.6.1)
minima (2.5.1)
jekyll (>= 3.5, < 5.0)
jekyll-feed (~> 0.9)
jekyll-seo-tag (~> 2.1)
minitest (5.14.4)
multipart-post (2.1.1)
nokogiri (1.11.6)
mini_portile2 (~> 2.5.0)
nokogiri (1.12.3)
mini_portile2 (~> 2.6.1)
racc (~> 1.4)
octokit (4.21.0)
faraday (>= 0.9)
Expand All @@ -233,8 +243,8 @@ GEM
rouge (3.26.0)
ruby-enum (0.9.0)
i18n
ruby2_keywords (0.0.4)
rubyzip (2.3.0)
ruby2_keywords (0.0.5)
rubyzip (2.3.2)
safe_yaml (1.0.5)
sass (3.7.4)
sass-listen (~> 4.0.0)
Expand Down Expand Up @@ -263,6 +273,7 @@ PLATFORMS
ruby

DEPENDENCIES
addressable (>= 2.8.0)
github-pages
jekyll (~> 3.7)
jekyll-remote-theme
Expand Down
98 changes: 81 additions & 17 deletions docs/fine_tune_bert_on_uspto_1k_tpl.html
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Expand Up @@ -79,6 +79,22 @@ <h2 id="Track-the-training">Track the training<a class="anchor-link" href="#Trac
</div>
</div>

<div class="output_wrapper">
<div class="output">

<div class="output_area">



<div class="output_text output_subarea output_execute_result">
<pre>True</pre>
</div>

</div>

</div>
</div>

</div>
{% endraw %}

Expand All @@ -104,6 +120,71 @@ <h2 id="Loading-the-training-data">Loading the training data<a class="anchor-lin
</div>
</div>

<div class="output_wrapper">
<div class="output">

<div class="output_area">


<div class="output_html rendered_html output_subarea output_execute_result">
<div>
<style scoped>
.dataframe tbody tr th:only-of-type {
vertical-align: middle;
}

.dataframe tbody tr th {
vertical-align: top;
}

.dataframe thead th {
text-align: right;
}
</style>
<table border="1" class="dataframe">
<thead>
<tr style="text-align: right;">
<th></th>
<th>canonical_rxn</th>
<th>labels</th>
</tr>
</thead>
<tbody>
<tr>
<th>61373</th>
<td>C1CCOC1.CC(C)(C)OC(=O)NCC(=O)NCC(=O)O.CCCCCCCC...</td>
<td>645</td>
</tr>
<tr>
<th>135235</th>
<td>CCN(CC)CCOc1ccc(Cn2c3ccc(OC)cc3c3oc4cc(OCc5ccc...</td>
<td>23</td>
</tr>
<tr>
<th>434023</th>
<td>CCN(C(C)C)C(C)C.CS(=O)(=O)Cl.C[C@@H]1CCC[C@H](...</td>
<td>0</td>
</tr>
<tr>
<th>188234</th>
<td>CC(C)(C)[Si](C)(C)OCCn1ccc(N)n1.Cc1cccc(C)n1.C...</td>
<td>795</td>
</tr>
<tr>
<th>406062</th>
<td>CCOC(C)=O.CO.COc1cc(C(=O)O)c(Cl)cc1Br.C[Si](C)...</td>
<td>195</td>
</tr>
</tbody>
</table>
</div>
</div>

</div>

</div>
</div>

</div>
{% endraw %}

Expand Down Expand Up @@ -135,23 +216,6 @@ <h2 id="Make-splits">Make splits<a class="anchor-link" href="#Make-splits"> </a>
</div>
</div>

</div>
{% endraw %}

{% raw %}

<div class="cell border-box-sizing code_cell rendered">
<div class="input">

<div class="inner_cell">
<div class="input_area">
<div class=" highlight hl-ipython3"><pre><span></span><span class="n">final_train_df</span><span class="o">.</span><span class="n">shape</span>
</pre></div>

</div>
</div>
</div>

</div>
{% endraw %}

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