comparison hubArchiveCreator.xml @ 85:a65e52152476 draft default tip

planemo upload for repository https://github.com/goeckslab/hub-archive-creator commit 1a81ebd0ddea950b84af3fc830e9267a4814b29f

84:cb62314a6297

    <outputs>
        <data format="trackhub" name="output"/>
    </outputs>

    <tests>
        <!-- Test with only the fasta file -->
        <test>
            <param name="genome_name" value="Dbia3"/>
            <param name="fasta_file" value="common/dbia3.fa"/>
            <output name="output" file="only_genome/only_genome.html">
                <!-- Use macro to check the whole common structure without repeated code -->

                        <has_text text="iframeOptions"/>
                    </assert_contents>
                </extra_files>
                <!-- check Trix index directory -->
                <extra_files type="file" name="myHub/Dbia3/trix/BLAT_alignment_bigpsl.bb.ix"
                             value="trix_index/blat_out.ix" />
                <extra_files type="file" name="myHub/Dbia3/trix/BLAT_alignment_bigpsl.bb.ixx"
                             value="trix_index/blat_out.ixx" />
            </output>
        </test>

        <!-- Test TrixIndex for BLAST Alignment -->
        <test>

                        <has_text text="iframeOptions"/>
                    </assert_contents>
                </extra_files>
                <!-- check Trix index directory -->
                <extra_files type="file" name="myHub/Dbia3/trix/BLAST_alignment_bigpsl.bb.ix"
                             value="trix_index/blast_out.ix" />
                <extra_files type="file" name="myHub/Dbia3/trix/BLAST_alignment_bigpsl.bb.ixx"
                             value="trix_index/blast_out.ixx" />
            </output>
        </test>

        <!-- Test TrixIndex for BigBed -->
        <test>

                        <param name="BIGBED" value="big_bed/inputs/BLAT_alignment_bigbed" />
                        <param name="longLabel" value="bigBed" />
                        <param name="track_color" value="#000000"/>
                        <conditional name="add_trix_index">
                            <param name="add_trix_index_selector" value="yes" />
                            <param name="trix_index" value="trix_index_files/blast_out.ix,trix_index_files/blast_out.ixx" />
                            <param name="trix_id" value="name" />
                        </conditional>
                    </conditional>
                </repeat>
            </repeat>

                    <has_text text="searchTrix"/>
                </expand>

                <!-- check Trix index directory -->
                <extra_files type="file" name="myHub/Dbia3/trix/BLAT_alignment_bigbed.bigbed.ix"
                             value="trix_index/blat_out.ix" />
                <extra_files type="file" name="myHub/Dbia3/trix/BLAT_alignment_bigbed.bigbed.ixx"
                             value="trix_index/blat_out.ixx" />
            </output>
        </test>
        
    </tests>

85:a65e52152476

    <outputs>
        <data format="trackhub" name="output"/>
    </outputs>

    <tests>
   
       <!-- Test with only the fasta file -->
        <test>
            <param name="genome_name" value="Dbia3"/>
            <param name="fasta_file" value="common/dbia3.fa"/>
            <output name="output" file="only_genome/only_genome.html">
                <!-- Use macro to check the whole common structure without repeated code -->

                        <has_text text="iframeOptions"/>
                    </assert_contents>
                </extra_files>
                <!-- check Trix index directory -->
                <extra_files type="file" name="myHub/Dbia3/trix/BLAT_alignment_bigpsl.bb.ix"
                             value="trix_index_files/blat_out.ix" />
                <extra_files type="file" name="myHub/Dbia3/trix/BLAT_alignment_bigpsl.bb.ixx"
                             value="trix_index_files/blat_out.ixx" />
            </output>
        </test>

        <!-- Test TrixIndex for BLAST Alignment -->
        <test>

                        <has_text text="iframeOptions"/>
                    </assert_contents>
                </extra_files>
                <!-- check Trix index directory -->
                <extra_files type="file" name="myHub/Dbia3/trix/BLAST_alignment_bigpsl.bb.ix"
                             value="trix_index_files/blast_out.ix" />
                <extra_files type="file" name="myHub/Dbia3/trix/BLAST_alignment_bigpsl.bb.ixx"
                             value="trix_index_files/blast_out.ixx" />
            </output>
        </test>

        <!-- Test TrixIndex for BigBed -->
        <test>

                        <param name="BIGBED" value="big_bed/inputs/BLAT_alignment_bigbed" />
                        <param name="longLabel" value="bigBed" />
                        <param name="track_color" value="#000000"/>
                        <conditional name="add_trix_index">
                            <param name="add_trix_index_selector" value="yes" />
                            <param name="trix_index" value="trix_index_files/blat_out.ix,trix_index_files/blat_out.ixx" />
                            <param name="trix_id" value="name" />
                        </conditional>
                    </conditional>
                </repeat>
            </repeat>

                    <has_text text="searchTrix"/>
                </expand>

                <!-- check Trix index directory -->
                <extra_files type="file" name="myHub/Dbia3/trix/BLAT_alignment_bigbed.bigbed.ix"
                             value="trix_index_files/blat_out.ix" />
                <extra_files type="file" name="myHub/Dbia3/trix/BLAT_alignment_bigbed.bigbed.ixx"
                             value="trix_index_files/blat_out.ixx" />
            </output>
        </test>
        
    </tests>