Mercurial > repos > goeckslab > chatanalysis

annotate chat_analysis.xml @ 5:569f6683ef2d draft

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planemo upload for repository https://github.com/goeckslab/ChatAnalysis commit a6103a83156aec5d739cae71b0507c5774731bb2
author goeckslab
date Mon, 12 May 2025 15:30:03 +0000
parents dd4874a77f62
children 1ee654186809
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1 <tool id="interactive_tool_chat_analysis" tool_type="interactive" name="Chat with your data" version="0.2.1">
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2 <requirements>
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3 <container type="docker">
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4 quay.io/goeckslab/chatanalysis:release
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5 </container>
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6 </requirements>
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7 <entry_points>
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8 <entry_point name="Chat with $input_dataset.element_identifier" requires_domain="True">
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9 <port>
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10 8501
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11 </port>
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12 <url>
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13 /
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14 </url>
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15 </entry_point>
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16 </entry_points>
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17 <command>
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18 <![CDATA[
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19 #import re
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20 echo "Starting Streamlit" &&
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21 echo "working dir now: `pwd`" &&
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22 mkdir -p generated_files &&
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23 #set $sanitized_input_dataset = re.sub('[^\w\-_\.]', '_', $input_dataset.element_identifier.strip())
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24 ln -sf '$input_dataset' "./${sanitized_input_dataset}";
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25 echo "sanitized input dataset: $sanitized_input_dataset" &&
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26 echo "input dataset: $input_dataset" &&
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27 echo "$input_dataset.ext" &&
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28 ln -sf $__tool_directory__/.env /ChatAnalysis/.env &&
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29 streamlit run /ChatAnalysis/Chat.py
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30 "$__user_email__"
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31 "$openai_api_key_file"
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32 "$groq_api_key_file"
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33 "$chat_history"
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34 "./generated_files"
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35 "$input_dataset"
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36 "$input_dataset.ext"
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37 --browser.gatherUsageStats false &&
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38 echo "Streamlit finished" &&
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39 echo "working dir now: '.' "
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40
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41 ]]>
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42 </command>
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43 <configfiles>
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44 <configfile name="openai_api_key_file"><![CDATA[
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45 $__user__.extra_preferences.get('chatgpt|api_key')
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46 ]]></configfile>
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47 <configfile name="groq_api_key_file"><![CDATA[
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48 $__user__.extra_preferences.get('groq|api_key')
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49 ]]>
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50 </configfile>
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51 </configfiles>
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52 <stdio>
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53 <exit_code range="0:0" level="log"/>
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54 </stdio>
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55 <inputs>
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56 <param name="input_dataset" type="data" format="csv,tsv,h5ad,xlsx,xls,json,parquet,h5,fa,fasta,vcf,gtf,gff,bed" label="Data you want to chat with" optional="false"/>
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57 </inputs>
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58 <outputs>
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59 <data name="chat_history" format="json" label="${tool.name} -- chat history json on ${on_string} -- use to restore chat history next time"/>
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60 <collection name="generated_files" type="list" label="${tool.name} -- generated files">
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61 <discover_datasets pattern="__name_and_ext__" directory="generated_files" />
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62 </collection>
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63 </outputs>
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64 <tests>
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65 <test>
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66 </test>
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67 </tests>
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68 <help>
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69 Analyze and visualize a dataset with a Chat Agent.
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71 Start a ChatAnalysis instance after selecting a dataset — we provide free access to some LLMs.
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73 You are encouraged to use your own API keys, as the provided free access has limits. You can obtain a **free API key** for BambooLLM by signing up at https://pandas-ai.com and a **free API key** for Groq by signing up at https://groq.com.
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75 If you wish to set the OpenAI API key beforehand, go to **User → Preferences → Manage Information → ChatGPT → OpenAI API Key**. This way, you won’t need to set the OpenAI API key each time you use the app.
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77 Similarly, to set the Groq API key beforehand, navigate to **User → Preferences → Manage Information → Groq → API Key**.
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79 Alternatively, you can set the API key directly in the ChatAnalysis instance after it has started.
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80 </help>
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81 </tool>
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