# Fastqsanger.gz not recognized in trim galore/ D interlacer **URL:** \ **Category:** usegalaxy.org support\ **Tags:** troubleshooting, fastqsanger, quality-control\ **Created:** [February 28, 2023, 10:03pm UTC](https://help.galaxyproject.org/t/fastqsanger-gz-not-recognized-in-trim-galore-d-interlacer/9530 "2023-02-28T22:03:27Z")\ **Posts on this page:** 4\ **Page:** 1
**Author:** ![Preet\_Kaur](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/preet_kaur/32/4030_2.png) [@Preet\_Kaur](https://help.galaxyproject.org/u/Preet_Kaur)\ **Post date:** [February 28, 2023, 10:03pm UTC](https://help.galaxyproject.org/t/fastqsanger-gz-not-recognized-in-trim-galore-d-interlacer/9530/1 "2023-02-28T22:03:27Z")
Fastqsanger.gz is not working in the trim galore or trimmomatic flexible trimming tool as a paired end collected. Ive tried to use a D interlacer to get it to work but the drop down list doesnt allow me to select my SRA data. Is there something i could do to fix this? ---
**Author:** ![jennaj](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/jennaj/32/27_2.png) [@jennaj](https://help.galaxyproject.org/u/jennaj)\ **Post date:** [February 28, 2023, 11:21pm UTC](https://help.galaxyproject.org/t/fastqsanger-gz-not-recognized-in-trim-galore-d-interlacer/9530/2 "2023-02-28T23:21:41Z")
Hello @Preet_Kaur Items to check: 1. First, be sure that you are using the option on the tool forms to look for _collections_ of input reads. [faqs/galaxy/#selecting-a-dataset-collection-as-input](https://training.galaxyproject.org/training-material/faqs/galaxy/#selecting-a-dataset-collection-as-input) 2. If the form is looking for a collection but doesn’t find your specific collection, next check that the individual files in your collection were assigned a datatype that matches the input field on the tool form. > [@fastq unavailable -- Tool does not recognize inputs? How to check why](https://help.galaxyproject.org/t/fastq-unavailable-tool-does-not-recognize-inputs-how-to-check-why/8925/2): > > if you are ever not sure what datatype(s) a tool accepts as input, any tool not just those that accept reads, try this: > > 1. Create a new empty history > 2. Load up the tool form > 3. Review the input datatypes listed in the tool form’s input area > 4. Note: A tool could have more than one input area and this works for all user-supplied inputs from the history. 1. Why the **Fastq De-interlacer** tool would help is not clear. Is the existing collection a list of _datasets_? Or a list of _dataset pairs_? If the reads are already split into pairs, then you won’t need that tool. 2. This tool is a great way to get reads from SRA into Galaxy that are sorted into collections: **Faster Download and Extract Reads in FASTQ format from NCBI SRA** 3. These tutorials can help more. > **[Galaxy Training: NGS data logistics](https://training.galaxyproject.org/training-material/topics/introduction/tutorials/galaxy-intro-ngs-data-managment/tutorial.html)** > > Galaxy is a scientific workflow, data integration, and data and analysis persistence and publishing platform that aim... > **[Galaxy Training: Quality Control](https://training.galaxyproject.org/training-material/topics/sequence-analysis/tutorials/quality-control/tutorial.html)** > > Analyses of sequences > **[Galaxy Training: Using dataset collections](https://training.galaxyproject.org/training-material/topics/galaxy-interface/tutorials/collections/tutorial.html)** > > A collection of microtutorials explaining various features of the Galaxy user interface and manipulating data within ... > **[Galaxy Training: Multisample Analysis](https://training.galaxyproject.org/training-material/topics/galaxy-interface/tutorials/processing-many-samples-at-once/tutorial.html)** > > A collection of microtutorials explaining various features of the Galaxy user interface and manipulating data within ... * * * If you are still stuck after reviewing, and please create a shared history link and post that back in your reply. [faqs/galaxy/#sharing-your-history](https://training.galaxyproject.org/training-material/faqs/galaxy/#sharing-your-history). Leaving all datasets undeleted, including your tests, will help to get the best feedback from our community. Let’s start there 🙂 ---
**Author:** ![jennaj](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/jennaj/32/27_2.png) [@jennaj](https://help.galaxyproject.org/u/jennaj)\ **Post date:** [March 1, 2023, 9:42pm UTC](https://help.galaxyproject.org/t/fastqsanger-gz-not-recognized-in-trim-galore-d-interlacer/9530/4 "2023-03-01T21:42:28Z")
Hi @Preet_Kaur That dataset is a single file, not a collection. It is an interleaved paired-end dataset. The **NGS data logistics** tutorial linked above covers this type of file. It can be produced by the **Download and Extract Reads in FASTA/Q format from NCBI SRA** tool. Try using this tool instead to extract the reads into collections → **Faster Download and Extract Reads in FASTQ format from NCBI SRA**. The tool names are similar, and retrieve similar data, but the “Faster” version will sort the output into collections. ---
**Author:** ![jennaj](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/jennaj/32/27_2.png) [@jennaj](https://help.galaxyproject.org/u/jennaj)\ **Post date:** [April 13, 2023, 4:55pm UTC](https://help.galaxyproject.org/t/fastqsanger-gz-not-recognized-in-trim-galore-d-interlacer/9530/5 "2023-04-13T16:55:09Z")