This is an ongoing post of research updates during the month. Updates are provided every few days, and you can easily reach the update by clicking the link in the calendar.
11/4/20 – Plans for the month and election update
I have quite a few things to accomplish for the month. Lets break it down.
With my first draft finished, I need to move forward with the Pluto results. I think, I would like to have this mapped by our next meeting (11/18/20) and have the depth profiles by the end of the month (12/2/20). Then we can set up a meeting with collaborator in December to decide how to move forward.
Catherine and I have a meeting 11/13/20 with McGill. I need to prepare for that. That will include reviewing notes from last time and prepare for updates from the team. What I hope to bring is 1) my own results and plans to move forward and 2) a proposal for an experiment idea we discussed before. That is, an experimental apparatus to model an organic freezing in water to test the SF2 model.
On that note, I need to think about how to move forward. That means adapt the SF2 model to work with an alternative chemistry, ideally an amino acid that is denser than water. The first steps mean reviewing the material we have on how it acts in water like with HCN. At the same time, I would like to update my results for my paper while it is being edited by me and my coauthors. I have the SF2 results; I need to process them to get a new set of fits (extrapolation) and thermal model. I think I can do this in the amount of time edits will take. However, I would like feedback on if this is necessary. If yes, lets aim for final results by end of the month. Similarly, I would like to have my initial research for an alternative chemistry by the end of the month. That paves the way for implementation in December.
In the same vain, I need to put together a presentation for my lab on some topics discussed in my PhD comps. This is related to chemistry and the water-organic relationship, so I think the two goals go hand in hand. The goal is to present these results in December.
Lastly, I need to make a poster of my results. I think I will just apply my presentation. I am not sure what the timeline is for AGU, and I’ll decide on this later in the month.
In other news, one of the worst scenarios is playing out in the election. That is, Biden’s path to victory is a slow one dependent on absentee ballots. Trump has already screamed fraud and called for them not to be counted. If this isn’t a crime I don’t know what is.
An image of the already marked tweet made by Trump. Note, the first version of this tweet misspelled the word “polls” as “poles”.
11/18/20 grading and editing and last minute modeling
Earlier this month we had the Dragonfly meeting. That was a long yet fascinating experience. I look forward to following future meetings. I’m in a bit of a unique position to join titan research at the end of a long mission (Cassini), and now I get to watch the making of one. It was at times a little technical for me, but I still enjoyed the experience. Naturally, I wish it had been in person. Not only for the lovely trip to Baltimore (or wherever it would have been), but because it’s difficult to stay focused behind a screen with no one around to see you distracted.
I’ve also been working on the second draft of my HCN paper. Catherine had some great advice (naturally) on how to improve the paper and the results which involved a few more model runs. Luckily, I had already been running more models since I was finalizing the paper, so I was in a position to update my results right away. Unfortunately, things did not go as planned.
When I was finalizing my first draft, I tabulated my variables and constants in my model. Naturally, I validated all the sources I had listed for my values in my code. It was then that I noticed I had one of my values off or my source had changed. I updated it, but it didn’t seem like a major update so I didn’t expect it to change much. However, after looking at the new data I had ran while I edited my first draft, I realized it was a fairly significant offset. Que full system check.
I did several things. One, I reran all my codes for new results. What I found was that updating my values had streamlined the code. It ran faster, and worked at more extremes that it struggled with before. This means, if correct, I may not have to extrapolate. Then second, I needed to make sure the change was because I updated my values and not a major mistake in the code I made. This meant I tried to recreate my old code with the old results. As hard as I tried, I couldn’t do it. I wouldn’t say I tried everything, but I felt like I could only afford so much time for this. Alternatively, I downloaded Jacobs fresh code and input the values as my current sources documented them. It reproduced my most recent results. This means, while I may not be able to recreate my original results (which concerns me), I can at least test assured that the change isn’t a mistake I made in the main code in some other area. All I can say is, my parameter values are accurate, and I can reproduce these results from scratch.
Example results with original data and new data. New data is on the right, with the added overlap at the top right starting from scratch with Jacob’s code. Notice the artifact on the left red line that no longer exists. This is comforting because it did not make sense, and was a big reason why I couldn’t use higher concentrations because it seemingly wasn’t stable enough.
I have some ideas on what was the key change that caused the results to change. However, without investing more time on troubleshooting I chat say for sure. One thing I have failed to do, largely because of confusion, is install GitHub which I believe saves various versions of your code for reference. This would have made troubleshooting a much easier process.
For now, I have been reproducing all my results, and more. To the point that, I think I won’t need to use extrapolation. However, I am pushing my luck when it comes to finalizing this second draft by Friday. I very well may be able to finalize my SF2 model results today and begin the heat transfer model. Although, I have doubts. It seems very likely this is going to take a few more days. If I don’t get this buy Friday (I have lab Thursday too), I think next Wednesday is achievable.
The yearly AGU conference is online where I will be presenting a poster.
I have not even mentioned that my AGU poster is due Friday. That will be done today, perhaps tomorrow, so I have time for feedback from Catherine.
PS: my power was out when I woke up this morning which meant I one, woke up late despite planning to write this, and two, had to write this in my phone.
October is, objectively, the most wonderful month of the year, and it felt like it came and went faster than any other month. October began in a rush to submit my DPS presentation. I was not that concerned. I had just presented my research in July (which felt more recent than it was), and the virtual platform opened up how we give the presentation.
The final stretch leading up to the 9th (the submission of my presentation) was to produce some final results for my project. this required sacrifices. That is to say, I had to settle for simplifications rather than continually strive for perfect results. Catherine made it clear, at some point, I have to settle for what I have and move forward. This means I used the results of the SF2 model for lower concentration and extrapolated for the higher concentrations since getting a full profile at higher concentrations was a big hurdle. I think this was a good fit because the minimal data I got for 50 and 75 ppt matched up well with the fit. The next step was the 2D thermal model. This was mostly effective. I had to download an updated version and modify it for Titan, and in the process, I struggled to get the model to take the higher order fit of the HCN-water phase diagram. That is to say, I had to use a lower order fit that is less precise. Lastly, I struggled with the time steps being output because the results I presented had a thin liquid level, but it is effectively frozen. It should be entirely frozen. What’s more, the time scales are half the length, if not more, of what other predictions have for models of this size. These are all things I need to improve moving forward.
A look at the program with a view of my presentation format.
In terms of the presentation, I was frustrated with the DPS set up (going in, and after). However, I intended to make use of the prerecorded method they used. I regularly film and edit YouTube videos. This is has not only prepared me for easy editing techniques, but it trained to be fairly comfortable talking to a camera. I debated trying to record all at once or breaking it down to each slide. Each slide, I could perfect the conversation, but I risk sounding rehearsed. The entire presentation, I risk making mistakes or going over in time. I opted to go be slide. This was not effective. I got burnt out very quickly, and I found I would never be satisfied with what I said. So I stopped, and recorded all the way through. I did that one time, and it was fairly good. It was too long and had several mistakes. Rather than rerecord, I decided to give it the YouTube treatment and piece together a concise and continuous conversation with abrupt cuts throughout. This is a common occurrence on BookTube. I remove mistakes often, and I often have a bad stutter. I also do it when I want to trim down excess conversation. I had to make sacrifices to trim this down, and I did so fairly easily. It is a tedious process but one I am fairly fluent at. I am curious to hear peoples thoughts on that approach, especially as it fits into a professional setting. For the slides, I exported them as images and input them into my video editor. In retrospect, I could have had higher resolution slides by recording my screen of the presentation because I could not control the output of the slides. I am sad that I have a poster for AGU because I would have liked to do this again, with this knowledge, at least rather than a poster.
The current iteration of the paper on the HCN project.
As we shifted to the actual conference, I also began to write up the results of my work for the manuscript I started earlier this year. I finished that on time, and it wasn’t that hard to actually write. The tough part was sitting down and writing. Once started, I find putting my thoughts to paper fairly easy. I had adapted my PhD proposal into the paper at large earlier in the semester to the point that I only needed my results. I also needed to finalize a couple tables, but that was easy enough.
Check out my November research update (hopefully an ongoing report) for my plans moving forward!
In the meantime, enjoy some October bike ride photos.
This is an ongoing post of research updates during the month. Updates are provided every few days, and you can easily reach the update by clicking the link in the calendar.
My apartment is finally finished being renovated. My new flooring looks really good and brightens the room. The old flooring was a much darker brown. It was done when I got home September 2nd, but it took me a while to get up the energy to organize everything. I particularly like my idea to swap the table and the couches. The living room has always been on the other side of the room where the window is. This has allowed me to put most of my books in that room. The lighting is great for YouTube videos, and I also just like things being different. I spend most of my time with my books and a my table than on my couches, so this works out.
The view of my place coming in.The view in the back corner to show you my book cases. Note, I’ve only read the books directly across against the wall orthogonal to the window. That shows you how many books I need to read 😐
9/8/20 – Labor Day Weekend
On another personal note, labor day weekend was Dragon Con. Of course, Covid-19 turned it virtual. It was not the same, but I did enjoy playing werewolf with friends and others.
Playing Zoom Werewolf at Virtual Dragon Con. FYI: 12AM is EARLY, not late.
Okay, I have made good progress on my HCN models. Unfortunately, the results speak to a level instabilities above 10%. I met with Jacob (Dr. Buffo) to discuss it, and we have clear plan to move forward. I’m going to work with what I have and extrapolate. The model can only do so much. If you would like to see my results, I am happy to share, but I won’t be posting it publicly. This includes good results for up 5% and okay for 10% as well as testing the affect of varying spatial increments on 1 and 5% (to use it on higher concentrations of 10% and up).
Right now I am running a few more models for 2.5% and 7.5% so we can create a detailed 3D curve of values to better extrapolate forward. These lower concentrations should not take too long. The goal is still up to 25% concentration to ~25m depth pond. I am going to start working on Figures for my paper. Initial figures are set for September 14th, and hopefully by September 16th I can get an extrapolated figure to produce with a paper draft to be sent to Catherine. Then I’d give myself another week to run 2D model (maybe a little ambitious) followed by a final (1st?) draft on September 28th.
Simultaneously, I am working on mapping Pluto. There was no progress with this in August, and the first bit of September I’ve been focused on producing results. That said, I’ve begun mapping. My goal here is to have the entire surface mapped September 18th and the craters depths processed by the end of the month (September 30th). With this timeline, it might be a good idea to set up a meeting with Dr. Bray in mid October.
My initial results of mapping craters over the N2 content on Pluto.
9/22/20 – Progress Update
The last couple weeks were fairly productive, but I did not achieve my goals. The goal was to have my HCN Concentration in the ice vs depth (thermal gradient) completed by the 16th. I have not. They are in working condition, but I need more data for 5% and 7.5%. This is going to take time because I have to start at shallower depth due to stability issues. On a positive note, I have verified that I can increase the dt with negligible effects on the results. This should allow the models to run to a deep enough depth by the time the paper is finished and needs the finalized figures (~mid October?). I am working on extrapolating the data I have, but it is proving to be more difficult than I realized. It is a new task for me, interpolating and extrapolating in 3D in MATLAB. It is just taking time. I have made progress on the paper. Is virtually good to go minus the results and discussions.
I haven’t worked on the Pluto work because it doesn’t feel as urgent. I honestly don’t know if I ought to give this any time until I get the paper done. The goal now is finish mapping by October 9th with the data processed by ~mid October (14th). I am doing that because I need to get the HCN results done for DPS in October.
I start TAing Thursday, but luckily all my labs are on the same day. The goal is to make those days the day to work on labs. Other days will stay for research.
This has not been the best of summers. Sure, I successfully completed my comprehensive exam, but beyond that, life has been tough. The pandemic began effecting us in March. It was another 6 months before I got to see my family again, the longest I’ve ever been away. Even that, was because my grandmother died. That was a very difficult experience made only worse by the pandemic. For a full discussion of that, I invite you to watch my Friday Reads for that week.
Nevertheless, we’ve all had it rough, and, as always, we manage. As the summer began I shifted focus to my comps, and it left me disheveled such that my routine fell apart. With it went my blog. I am here to summarize my research, and to bring us back into the routine of more regular updates. Of course, it is difficult to be specific about details months later, but I will do my best to summarize the last few months.
June
By June, the Remote Sensing class was over, but we had assignments to complete. I tried to complete one lab a week, but that fell apart after the first lab. I ended up spending a lot of time updating my proposal after getting feedback from Dr, Pratt. That involved creating a few new figures, but the biggest objective was to review the literature pertaining to the model and the fundamental approaches it uses. The need to complete this is, I think, what broke my routine of blogging and pomodoro.
Life became less about focused work about meeting deadlines. Luckily, I learned a lot in this process. I do regret that I never discussed the papers in my Science Paper blog post. I want to return to this, but it was hard to justify a deep dive in one paper when I needed to review so many so quickly. Nevertheless, I hope to review some of the material and present it in that post to 1) refer back to and 2) discuss with the lab.
July
In the end, I was very happy with the updates to the proposal. I sent it out to my committee very early into July. At this point, I had hoped to create a more structured studying approach, but I got overwhelmed with the labs for the Remote Sensing course. I quickly finished these and promptly moved on to the project. I was very frustrated with these labs. Although, I can’t complain much because I learned a lot of things in the process.
I dove into the project understanding things I had struggled to follow several years ago for my Titan crater mapping. It is in fact why I’ve steered away from using ArcGIS when possible, but I feel much more comfortable with it now. That helped me push through the project.
My project was to map craters on Pluto, take there depths, and relate the crater degradation to the N2 content in the craters. This was based on past research which suggested that N2 cycling will lead to 1) erosion and 2) relaxation. Sadly, I made a critical error when importing my data into MATLAB (where I took the depths and related it to the N2 content). I had separated pristine craters from degraded craters in my crater maps based on what the new Robbins et al. (2020) defined as pristine. When importing the crater data, I assigned the diameter and N2 content of the pristine craters to the degraded craters.
I believe this was a issue with sorting the data, so I patched the error and rushed to recalculate my results. In the end, I only processed the pristine craters. This severely limited my ability to analyze what was happening. I intend to completely redo my code after the project if the project was carried forward (it was).
SEction ofPluto overlain with craters mapped and N2 Content
In the final week or so leading up to my comps, I took time create flash cards. Essentially, I was reviewing the basics when it came to Titan. I had hoped to do this sooner, but it didn’t pan out. Luckily, the proposal process was a very good review, especially addressing Dr. Pratt’s suggestions. I didn’t review the note cards much, but the act of making them gave me a sufficient framework of what I needed to know. Obviously, I ended up passing with some recommendations (although these were minimal).
August
August began very well(ish). I was fresh off my exam, and let myself relax. I still did a bit of work each day the first week. Although, I didn’t stress too much about it. Things were complicated early on when my place flooded, again. A new emergency window in my basement unit wasn’t done right. It already required my floor needing replaced, and after it happened again, but worse, we had to speed up the process because of mold. I moved into an Airbnb (not at my expense). This lasted 2+ weeks, and made it hard to work.
Luckily, I was able to work from school for a bit. Most of my time was spent troubleshooting the code as I wanted to get it to work at higher concentrations. I ended up getting to work well enough. I don’t remember the other things I did, and I didn’t log it in Pomodoro at all. It doesn’t help that my grandmother died half way through. That ended up monopolizing the rest of my month. Again, see my Friday Reads for that week if you’re interested in a more personal discussion.
This is an ongoing post of research updates during the month. Updates are provided every few days, and you can easily reach the update by clicking the link in the calendar.
5/1/20 – particles vs solidification fronts
This was a so-so week. I’m doing pretty good at 4-5 pomodors a day, but I have had even slower days. Today I am clocking in 6 pomodors though. Still, I’ve done a bit of reading. I’ve started discussing some papers in a new blog post, you can find it here. Like this, I will update it monthly (assuming I can keep it up). I use as an outlet to discuss the paper as a review, and then I discuss its relevance to me. I’m also tacking on some papers referenced in it that are worth looking further into it.
I talk about sediment and particle entrapment (as opposed to solutes), and one thing Catherine pointed out was that solutes may not act the same as particle. The difference between a particle and a solute is just that a solute becomes a homogeneous mixture, sometimes breaking down (I think). HCN is miscible; that is just the liquid equivalent of soluble. I’ll discuss the mechanics over on the paper review post. I am not going to finish the paper today, but I am going to do an overview of it for now.
Also, I found this site that lets you easily import a pdf and fairly well read it to you. It isn’t perfect. It limits you to 20 minutes a day of moderate quality voice (no limit on low quality). However, a VPN does fix that issue. Nevertheless, it has helped me stay focused. If you know me, you know I am an auditory learner, so even if I have to go back several times, it helps having that to help me follow it along.
5/13/20 – Remote sensing, paper reading, and comps review
Since we last spoke, we had the remote sensing short course. It was informative and mostly enjoyable experience, but it was also exhausting at times. I made significant progress on each of the daily labs. Although, I still have a good bit of work left to do in addition to the project we grad students have to develop.
I am trying to work a little bit on the labs and on other things since I have so much time. I finished reviewing a paper I had begun before the class (you can read my thoughts here). I am going to continue doing that paper review post which I think is working well. Overall, this week has gone well. I think the remote sensing course helped get me in the mindset of treating my days at home like work days (sucks we didn’t do it sooner!).
Monday I reached 7 pomodoros. Tuesday wasn’t the best at 5, and that includes a meeting which is a questionable task. Today I think I will clock in at 7 pomodors (and end the day a bit early!). Granted, that includes one for the group meeting, but a 2 hour meeting deserves one pomodoro in my opinion. It is interesting to see how I work on different tasks. Today, I got carried away by Garhard’s comments on my proposal. I was very engaged, and it made it easier to focus. Alternatively, reading a paper or writing are very different activities that I often get distracted from. I think that is also reflected by my tendency to obsess on one task. I start each day with a plan; I try to dedicate time to everything I need to work on. I inevitably focus most of my time more on one task. Granted, I make a point to shift focus the next day, but it still makes it hard to do multiple things in a day. That is disappointing because things like reading or writing end up being sprints that are tough to maintain (as I’ve mentioned). All that said, it is interesting to reflect back on my tasks. I have a saved account on pomodoro, so I can see what I did when.
In regards to Gerhard’s comments, I felt good about most of them, and those that I was unsure about I feel I know how to go about answering them. That said, there were definitely things I am going to push back on because I am confident in my work (or so I keep telling myself).
a beautiful montage of Cassini images from Cosmos Possible Worlds
5/29/20 – A belated update
As I write, the date is June 11th, and needless to say I’ve fallen short of my blogging goals. I’m going to try and summarize the rest of this month to best of my abilities because I still like to have for here. It helps that I logged my time on Pomodoro. This was fresh off of the remote sensing class, and I was trying to balance research and the class responsibilities. I’m trying to balance my daily activities. More often than not, I find my self spending entire days on one thing (labs and class project vs studying for comps). Overall, if it works it works, and it seems I am spending equal time for each.
In the last week of May, I met with Gerhard about my proposal. This has me worried for my comps, not because I wasn’t prepared, but because of the level of anxiety I had around the meeting. Realistically, I don’t think I should be worried. We had two very productive meetings. In one I answered all of his questions with ease while also identifying a couple areas where I could stand to research the Titan background. In the other, we talked about the model and where his focus is going to be; it’s the paper I base this off of.
We came to the conclusion that the proposal could stand some edits, and after talking to my other committee members, we agreed on letting the proposal run a bit long. I needed to spend more time discussing 1) the numerical methods used and 2) the broad uses of the mushy layer model and reactive transport models. I did a broad review of the material with great help from Jacob, and you can find some of my discussions in my May paper log. I’ll probably go back and do a review for one of the other papers I read too, so keep an eye out for that (3rd) listing on that post.
I successfully finished lab one for the class. My goal is to finish at least one a week. I also need to make time for work on the project so I don’t leave myself with just two weeks to do the project.
This is an ongoing post of research updates during the month. Updates are provided every few days, and you can easily reach the update by clicking the link in the calendar.
4/7/20 – slow and steady wins the race
Modeling is still going strong. Sadly, the code I had running at school was reset, I assume from a power outage? If it happens again I will probably stop running code at school. Meanwhile, Jahnavi and I have gotten into the rhythm of reading pretty much every day. My comps are being set in July (date TBD?). I don’t love that idea, but I would rather do that then start our time back on campus stressed to the max. I think it’s also less intimidating over video. In other news, I have begun making an outline for a paper write up of the stuff I am working on. I suppose working on that will help prepare me for comps as I think more and more about what I am doing and the background around it. Although, I need figure out a good pattern to studying. I think once I met up with my committee I will get a better idea what I need to study.
4/14/20 – Writing, Studying, Modeling, and Time Management
Images from night bike rides taken with my Google Pixel Night View
Modeling has continued as ever. I am fast approaching the point where I will have to reasses my results to decide if there are any points missing. I think I may have everything I need for HCN after the next week or so which is great seeing as I need to start composing a paper of this stuff. I haven’t actually made any progress on that front. Pretty much all of the work I’ve done has been toward an introduction chapter for my thesis. The purpose there is to use that as a means to study. I am not sure how or if I am going to handle doing that and the paper I need to write.
I am waiting on feedback from Gerhard and I got some feedback (more pending) from Rick. I’ve composed an outline for my Chapter 1 thesis, but I am thinking I will start focusing on the area he mentioned which was terrestrial understanding of organics in ice as he does not seem convinced that this sea ice model is applicable (or so is the implication I’ve garnered). I think the problem is he’s thinking on a molecular level when this is a bit larger. As I have described before, we are modeling “average” inclusions in the form of brine channels. In a 1-D model we can’t detail the actual channels, but is more of a bulk look at the system. I intend to document terrestrial studies (limited by life which may act differently) and the basic chemistry/physics. Of course, I will also compare this to clathrates which are different all together than what we expect to find here.
This week I returned to my handy-dandy pomodoro timer. I am going to start using that to help motivate myself to work. Again, 6-8 pomodoro’s is the goal. Today, I ended up doing 4 which sounds so bad, but I expect its the best I’ve accomplished as of yet. As I’ve said before, I work well with goals and boundaries. I am hoping this will help motivate me because it becomes a challenge of sorts. If I want to read, I need to work; the sooner I focus the sooner I will be done with what really isn’t thatbig of a goal, especially without others around to distract. Although, I am including meetings in this which isn’t exactly “focused work,” but I figure given the situation I can justify being a little lenient with myself.
On the side of self care, I’ve had a good run of focused reading. I also have a decent biking routine; every(ish) evening or night I go for an hour or so bike ride. It is a beautiful ride at night. Plus, there are fewer people (next to none). You can see one of my rides below and more pictures above.
4/22/20 – So so goings on
Things have improved somewhat. It is a little embarrassing to discuss my proficiency, but things have improved. My goal everyday is 6-8 pomodor timers, same at work. Over the last week I’ve ranged from 4-7 pomodors a day, I’d guess ~5 on average. I suppose compared to my goals that really isn’t that bad, but it still feels so insufficient. I’m working on improving my sleep schedule, but it’s hard. Just last night I went to bet at 1:30 and woke up at 7:30 because I’ve become accustomed to limited sleep. Then when I wake up that early, it is hard to get up and to work because it feels like free time which is absurd. Its the time I need to get to my 6-8 pomodor’s.
Work wise, models are going slow. One crashed when I accidentally unplugged my computer and it died over night (luckily one stayed in hibernation or something). I also finished grading the astrobiology reports with Jahnavi, and to our surprise, we were pretty close in our grades. Other than that, I had a fantastic weekend participating in the #StayHome Reading Rush. It was great reading experience, and I think I left it a little less stressed. I definitely wasn’t feeling as many anxiety symptoms by the time it was over. You can watch my vlog of that on my channel if you’re interested in hearing more!
Here is a short video of my ride (as I don’t #StayHome) one evening. I made it for my vlog and decided to upload it alone to my personal YouTube page too.
4/24/20 – Living the Loop
Have you ever seen lost? There is this iconic introduction of this one character, Desmond, in a bunker, and we basically see his daily routine that never ends, until it does. To quote Carl Sagan, “That’s here. That’s home. That’s us.” That is why I know how important it is I nail down a routine here. Honestly, I think I have a pretty steady work flow. It isn’t as much as I’d like, but it’s a matter of refining the routine. That said, there are days, that is, yesterday, that aren’t great. Thursday was not a good day for work. It was very unproductive. I had hoped to make up for it on Friday, but that didn’t happen. I’m probably going to pull in 6 pomodors today when all is said and done.
We’re over a month in. Should I be past this point? Should be I lying here, or, at least be less up front about all this? Maybe I’m too comfortable. In any case, I’m getting some work done. I am really liking the Titan reading sessions with Jahnavi; that is the one thing we do fairly consistently. Today, I also got some paper writing done. My goal is 3 or so pomodors for writing and reviewing each. That didn’t happen, and I didn’t end up reviewing today. I have imported my relevant proposal info into my manuscript file. now, I am working on refining it and adding parts I need that weren’t in the proposal. That is results and a discussion of my thermal model which will act as a review.
I didn’t do it today, but I want to spend my current thesis time reviewing specific papers. Write up what I learn in a way that can fit into my thesis but also work as a standalone review. I feel weird talking about it instead of doing it, but #goals I guess.
4/27/20 Paper update
Today was not a bad day. I am on my 7th pomodor (updating my blog being the task). I spent most of my time working on my manuscript. I was making some tables about the variables being used, and reached the point where I need to talk about the results and the fits we use to approximate them. I looked at the results I’ve produced in the last few weeks in MATLAB. They are not great. The results using dz = 10 cm look different, and I need to figure out why. I’ve started coding lower concentrations that I have data for at dz = 10 cm to compare and see what the difference is. I need to figure out if its an overall problem with using 10 cm, or if there is something else I am missing. If dz doesn’t work, I am at a loss how to move forward because it doesn’t want to work with the usual dz = 1 cm.
Honestly, the fact that it doesn’t want to run at 1 cm for higher concentrations doesn’t make sense. At the higher concentrations, the system remains stagnant, and doesn’t convect when it does for the higher density difference. The only other change is a lowering in the melting temperature. I couldn’t pinpoint the problem the last time I reviewed the code, but I think I may go over it again and try to figure out why the critical Rayleigh number isn’t being reached.
Since I spent the day focusing on the paper and the results for it, I think I’ll devote tomorrow to thesis review starting by reviewing a few papers. I had hoped to do it today, but I got carried away with the 1D model issues.
This is an ongoing post of research updates during the month. Updates are provided every few days, and you can easily reach the update by clicking the link in the calendar.
3/24/20 – A month long update
I’ve fallen behind on my blog updates the last few weeks. Let’s recap why. The main reason was that I was working on labs and my proposal. It was taking more of my time, and I was becoming aware of the looming (desired) deadline. As such, I found it harder to come in and start with the blog. As with most things, this a pattern of behavior. It is easy to lose the habit. I actually haven’t blogged much research or otherwise. Most of my free time has been on my YouTube channel instead. As we transition to spring, I will try to get back in the swing of things. Of course, there are a lot of factors at play with that.
I’ll start with the research side of things. I finished my proposal, and I have sent it off to my committee for review. We also set a date for my defense! Was it April 24th or 21st? I don’t remember. I’m busy that day anyway because of the social distancing and all. Our labs have been canceled because they aren’t the easiest to do remotely. The group project is still being done by Nigel. I mean, he hasn’t been very communicative, so I am not concerning myself with it. I am still running models at school, but they are running slowly. I need to figure out how (and if) it is possible to get these higher concentration runs to work at higher time steps. Then I am also continuing to study for the comps exam whenever that may be.
On that note, I think we all know we are working from home. It is good and bad (mostly bad). I need to get a routine down, and I do think updating this blog is a good way to start that. I am trying to shower and dress for a virtual meeting each day so I don’t get stuck in laziness. I’ve also been doing a bunch of stuff around the house, yet it is still a wreck. I’ve also tried to start making videos more frequently (every other day perhaps) given all my free time. Obviously, that isn’t a priority over work, but one doesn’t rule out the other.
I am trying to focus, but for my own mental health, I am not letting myself get too overworked if I have a unproductive day. At some point, I say the rest of the day is mine regardless of my progress. Obviously, I need to start thinking of methods to get my routine going. Naturally, this is a tough time for everyone. I fear (and know) I have overreacted. Things aren’t as bad as they could get, but we can only take it one step at a time. We all have our own coping mechanisms. Mine are mostly eating too much. To overcome that, I try to make a smoothing to help pace myself (these are huge and can last hours). I also am trying to make myself to bike every couple days (I haven’t gotten to doing it daily yet). Other than that, I am video chatting with people more. I played Ultimate Werewolf on Zoom and that was a lot of fun.
This has been a tough week. Things really haven’t gotten as bad as the could. I’ve moved past the initial phase of constantly worrying that every little discomfort may be a symptom. Sadly, I’ve only become increasingly worried for my family. I’m sure it goes without saying this hasn’t been the most productive week. Nevertheless, I’m here to talk about what I’ve done to hold myself accountable and to encourage myself to strive for more to say next time!
I’ve been playing around with my models, and I’ve managed to beginto get results for 10%+ concentration at higher (50m+) depths. It seems using a larger dz makes it more stable? Although, I am worried that might mess with the result accuracy or precision.
3/31/2020 – Inching Forward
I spoke to Jacob, and he thinks 10 cm should be just small enough to get reliable results. The trick is needing a dz that is smaller than the actual “mushy layer”. This is the layer where we have a mix of phases occurring which has convection driven by changes in concentration (buoyancy) and temperatures. I am still trying to understand the problem with higher concentrations. For whatever reasons, the Raleigh number it produces is just very small, but higher concentrations should create a bigger density difference between it and the ice. There is no reason why that should hinder the convection. I am running a couple at 5 cm dz as well. Once I get some results I am going to compare these with my 1 cm dz to get a better senses of what effect this has on it.
I need to study more. Jahanvi and I are going to start doing meetings to keep reading Lorenz’s book. I think I might start writing a background chapter for my Thesis. It is the best way for me to review and study for my comps which are only NaN weeks away.
This is an ongoing post of research updates during the month. Updates are provided every few days, and you can easily reach the update by clicking the link in the calendar.
2/4/20 – Leveling off after a bumpy start
Monday wasn’t the best day. I didn’t reach my timer goals, but I managed to make them up today while still managing six today as well. It makes me feel a bit better about the week. That said, I look at the progress I’ve made on these labs and it terrifies me. I spent all of today grading, even though I know I shouldn’t. Tomorrow I’m going to refocus on background review for comps. Jahnavi and I are trying to work together, each studying a different topic and coming together to discuss each with one another. The goal is to hold ourselves accountable while lightening the load a bit. That is, we each help in finding good sources for different topics.
I went ahead and started a few models to expand on the data I have. I am facing a serious problem with models in the 100s of ppt. I can’t figure out why the model doesn’t want to work, and I’m afraid it may take me spending a good amount of time troubleshooting it. There is also a problem with the data where it spikes at a certain depth for all my concentrations. I need to figure out why. Imagine the curve following a set path, then you take a slice and slide it to the right. That is basically what is happening at maybe 50 m depth for each depth.
Wednesday was a good day, spent grading, but productive nonetheless. I managed 6 pomodoro’s even after the lab meeting. Those labs are almost done. Although, now I have a new set. I think I am going to have to start logging exactly how much time I am working and even do grading on my own time. Honestly, I don’t mind tedious labs because I can listen to audiobooks while I go through numbers and one word answers, but short responses require I actually think about what they’re saying.
This weeks lab was on “Is it Science,” which is always fun. Of course, I would always refer the reader to Carl Sagan’s The Demon Haunted World: Science as a Candle in the Dark among other works by him. This also marks my last lab until lab 10, so that will help me moving forward (especially with LPSC around the corner).
2/11/20 – Grading and Deceptacon (Visiting Atlanta)
I’m leaving to go to Atlanta tomorrow night for Deceptacon. It isn’t the best timing because I have so much grading to do on top of my proposal being due soon. I’ve been focusing mostly on the grading to get it out of the way. I’m also hoping to make time to get some grading done while I am away. Reading week will give me some time to get ahead in my grading.
Sadly, this was not a productive trip home in any way. I didn’t get any grading done, and I never spent much time focused on my proposal. On top of all that, I fell behind on my Youtube and reading schedule too. You’d think a time away from work would mean I have more free time to do the things I like. Sadly, I just couldn’t get in the mindset to do it. It isn’t all bad, though. I had a lot of fun playing werewolf and seeing my friends. I actually got more sleep than normal too getting to be at ~10 PM the first night and ~12 AM the second night. Admittedly, I literally didn’t sleep the last night, but I knew I probably wouldn’t. That’s why I didn’t feel as bad missing time to play the first two nights to ensure I had a couple full nights rests. Now that I am back I have to refocus onto labs and proposal.
The final hours of the final day of Deceptacon 2020. You can see me in the back left under the left most light fixture.
Everything is coming down to the wire. The astrobiology midterm is barely a week away, yet I am still behind on my labs. My proposal is due in like three days. You would think that these two deadlines would motivate me, but that just wasn’t the case. This all has me very anxious and stressed about all I have to do, and instead of working, I am doing less work than I normally do. Honestly, this has probably been the worst productive week this year.
Even outside of school, when I am at home I can’t help but stress about my lack of work at school and thus feel like I can’t stop and read. Of course, I don’t work, instead I just sit down and watch TV, and the result is that I end up reading next to nothing. That sucks because I like reading. It’s relaxing, educational, but it has also become a fantastic way of structuring my work-life balance. I’ll be relieved when this month is over. For now, it looks like I’ll be having a weekend of working from home.
It took a lot of time, but I finished the proposal. I didn’t even have to postpone the deadline. I also finished one of the labs I have been grading which gives me time before I do the next one. I ended up tackling my proposal by asking which parts I had left. Then I made an item in my pomodoro timer for each section asking how much time each section ought to take. Then it shows me 1) how much I’ve done and 2) how much I have left. It really helped me focus, but it also kept me from focusing too much on minor sections that weren’t worth that much time.
In the end, I did ~30 pomodoros. With a daily goal of ~6-8, that equates to roughly 5 days of work. That doesn’t even include the time I spent grading. Obviously, this doesn’t change the fact that I have more to do. I still have to create updated drafts for the proposal and keep grading, but it is still a relief to be able to say I did what I needed to up to this point. It’s also nice to be able to look back on the work I did and quantify it. Sure, I had a bad week last week, but this pretty much makes up for it. That alone is helpful in breaking free of this spiral of stress and self destruction.
This week, I will finish another lab and hopefully get a final draft of the proposal finished too. Outside of school, I am working to make a final sprint of reading to make up, at least in part, for the sluggish couple weeks I experienced. I am hopeful moving forward that I will make good progress all around!
This is an ongoing post of research updates during the month. Updates are provided every few days, and you can easily reach the update by clicking the link in the calendar.
1/6/20 – A new month, year, and decade
I had one hell of a trip back on Saturday. I had just come down with the flu which made my trek home a miserable one. Add on to that the two hour late Greyhound I had from Detroit (to London) I was about ready to die. Nevertheless, I made it home. Friday I submitted my revisions, and I was able to submit it under the Cassini submission (yay!). Today I got the edits back from my collaborator for my LPSC abstract. I still have the flu, so I am not that eager to finish it just yet.
The flu didn’t go away until Thursday. That was a blessing since it was also the first day of lab. I finished my LPSC abstract in a flu induced daze. Most of my week was spent at home in bed resting. The first astrobiology lab went fine. The set up was annoying, as was coordinating with the professor to ensure we had all the proper items for the lab (apples, sugar, etc.).
Given the flu, I didn’t do much time management techniques. I did some work reproducing my model. I spent much of December reviewing it and the models it is based on, but I am at the point where I have to start applying it. My goal for next week is to focus on that as well as get back into the Pomodoro timer, which Catherine has suggested a much more reasonable goal which I am excited about (the reasonableness of it that is).
I’ve had a more successful couple days of 6-8 pomodoro’s. Part of me feels I ought to be doing more, but it definitely is a much more attainable goal. I’ve also found myself keeping a much more regular sleep schedule which has helped form a more structured routine. Hopefully it sticks.
I spent some time doing TA duties for Astrobiology. It is a little frustrating because Jahnavi and I have yet to get an official duties sheet from the professor. That means it is a little unclear what our responsibilities are. Obviously, I’ve done the class before, but is he expecting us to handle the course project. He’s having us receive the relevant information which suggests we are handling it, but a bit more guidance would be appreciated.
As for the model, I’ve been able to piece together how a few components are implemented. That is, it makes sense, and I can replicate it, but there is one piece that is very convoluted. It is unclear how it is making use of the governing equations. I have an idea of how I would apply them, but it isn’t what I am seeing in the code. I’m discussing this with Jacob to understand what it is he’s done, but I am also going to review a bit of finite element modeling to make sure I’m up to date with the material.
I still haven’t replicated the code, but after a bit of thought plus a little help from Jacob (code maker) I was able to figure out what was going on. It’s a straightforward application of the equations that set the gravity driven brine velocity, the ice fraction, and the Raleigh number used in the model. I was confused when it came to solving for temperature and salinity.
The actual solution is a bit more complicated as it uses a method in linear algebra to expedite the solution. Again, I couldn’t replicate this (as it stands), but I think that is okay?
This wasn’t a great week. In addition to having lab on Thursday to do and prepare for, I had grading for the previous weeks lab. That was exacerbated by having to sub-lecture for Nigel, the professor of the course, on Tuesday. It was one of those weeks where I get overwhelmed and become less productive and feel worse. I didn’t do any pamadora timers, and I think that was part of the problem. Luckily Nigel got back from his conference early and was able to lecture on Thursday, and that was a bigger relief than I realized. I was able to focus on grading the rest of the day and Friday (for a bit).
In terms of research, I did a bit of work trying to check the progress of the models I’ve been running the last few weeks as I review how it works. Obviously, it hasn’t been a major priority, but I didn’t want that time to go to waste. I am at a bit of an obstacle because I can’t get it to work for over 200 ppt (20%). I’ve been troubleshooting that because I want more data to present for LPSC in a couple months.
I got big news yesterday; my paper was officially accepted by Icarus! It took a year and two rounds of revisions, but it’s finally done. Thanks to the coauthors, the reviewers and Icarus.
I’ve had a hard start to the week as I’m not using the timer. I have a lot of grading and other astrobiology work, and I am worried I am spending too much time on that. It is just very easy to gravitate toward that, and it ends up taking up a lot of my time. I need to just restrict myself to a set number of timers a day for that because what I am doing right now is just not even bothering with the timer when working on astrobiology stuff.
I spent some time reviewing my work on the model, less review and more checking on my state of results. There isn’t much progress to show in this regard as of yet. Overall, the end of January has been very sluggish, and I am going to aim for a more productive February. I can use Pomodoro’s every day, save Thursday’s. That is my goal; use these every day with a clear outline of what I did and on what. If it’s a slow day, then it’s a long day.
Much to my surprise, I received a presentation at LPSC. That is equally exciting and terrifying. I did well last time, so the pressure is on to prove it was the norm and not a fluke. Obviously, I have amazing self confidence. I went ahead and started making a frame work for my presentation. I want time to thoroughly practice and review it, but I also want to make sure I have a clear idea what results I need to focus on producing for the slides.
Okay, goals for next month: 1) use timer, 2) grade/ focus on astrobiology less, 3) spend time reviewing Titan, 4) work on presentation, and 5) produce the results needed for the timer.
This is an ongoing post of research updates during the month. Updates are provided every few days, and you can easily reach the update by clicking the link in the calendar.
12/2/19 – Another Month
I came in this morning to find the 200 m depth python code I had running over the summer was still running. Unlike with MATLAB, I don’t know how to measure its progress. I am going to let it continue and when I need a figure I may have to use an existing result from the previous set up for the meeting on Thursday. In the meantime, I need to finalize the presentation and the annual report write up.
Goals: Work on the report and presentation over the next two days. I intend to have the written report done by EOB on Tuesday and the presentation by the end of Wednesday. The last couple days of the week, I will work on the manuscript edits.
Okay, so the annual progress report meeting with my committee was today. It was vicious. I’m writing this the following Monday, so luckily I’ve had time to let it all sink in. Nevertheless, I’ve got a ways to go. I am not prepared for comp exams in February and it is being pushed back until April or May. I do not have a sufficient understanding of how the code I am using works. Granted, I reviewed it at the start of the year, but after I got to Georgia Tech it became hands on. I made the necessary changes and everything after that was about getting the necessary results. In any case, this has been an eye opener.
Catherine, has given me some recommendations on how to try and improve my understanding of the novel (e.g. replicate pieces of it in Matlab). I’m working on that. Even on my first review, I recognize the discussion makes more sense this go around having been hands on with the model, so I am hopeful moving forward. I won’t pretend it wasn’t embarrassing and shameful to be told, “you are not at the point you should be at the stage in your PhD (~16 months in).” It was tough but necessary. I’m not about to give up. As long as I am offered a path forward I am going to take it, and I must say, I feel better despite what happened. Obviously, I’ve felt like I should be further along. It sucks to have that confirmed, but it means I have more guidance to get on track.
There was some criticism in regards to my Annual Progress Report. Apart of choosing not to pass it by Catherine first, I don’t regret how I approached it. There is literally one line even addressing the need for an Annual Progress Report on the Earth Sciences requirements page. I used the template I was given a couple years ago that asked for Background and Progress to date. I knew it was an abridged document and made a conscious decision to include references in text, in case the reader wanted to dig deeper, but this wasn’t my proposal. Therefore, I opted not to provide a full list or a complete run down of the model. I did the same thing for my first report.
Obviously, my lack of details on the model was representative of a greater problem, but it is frustrating that there aren’t more details on this provided by the department. I recognize this may have been resolved, at least in part, if I had reached out and included Catherine in the process. Unfortunately, I wrongly presumed to think that wasn’t necessary because I had been through the process before. I am trying to make a point to reach out to her more often.
I’ve taken to using the tomato timer. It has helped me focus a good bit, but I’m also faced with quantifying all the time I could be working. I can fit 15 pomodoro’s in an 8 hour day. Of course, things come up, so my goal is at least 10. I have yet to achieve this. I spent a good deal of time studying the model and making notes/writings in my proposal. Unfortunately, I lost focus later in the day Monday. Then Tuesday didn’t go much better. In any case, I think it is a good thing to work towards. my tasks/goals: continue studying model/editing proposal, edit manuscript, work on LPSC abstract, and a bunch of administrative tasks.
One thing I think might help to keep me focused. If I get the urge to do something distracting, I can log it as a personal pomodoro. While still a distraction, hopefully this will help me regain focus after the 25 minute segment is up.
I’m still getting the hang of using the Pomodoro timer. That is to say, I am not reaching my goal of 15 Pomodoro’s, but it does help me focus. Of course, things come up (meetings, problems and helping others). My minimum is 10 that I try to strive for. I have room for improvement, but I made good progress on reviewing the model. I’ve been doing a lot more back reading. I haven’t applied any of it to MATLAB yet; I am trying to review the different models the Planetary Ice Model (Buffo et al. 2019) builds on. I am getting a much better senses of the assumptions I have to make here and how the code works in general. In regards to my LPSC abstract, I’m roughly half way through it which I feel good about.
I’m still spending a good deal of time reviewing the model. As I do so, I am finding which assumptions are being made where. I haven’t started trying to replicate the code yet. I think what I might do is use what I have, making note of what assumptions are where such that I can return to them later while still getting along with doing hands on work with the code.
I’ve been trying to get a good figure for my LPSC abstract. That means I’ve been frantically trying to get the analytical fits to work with the model results I have but have to get more results each time. I have a final exam tomorrow to proctor (and start grading), and I am beginning to worry about my abstract because I really wanted this done today with the exam the next couple days then traveling home on Thursday.
I finished the grading. I ended up staying up late last night to get it done, but it left me with time to finish packing. I leave tonight at ~3 AM. I think I should have time to finish my LPSC abstract by Friday, and I am hoping I can get my manuscript finished by Monday.
Its proven much harder to get the work done. Family get together over the weekend didn’t leave a lot of down time. Then, yesterday, my computer crashed, so I’m using my iPad and an old laptop with a broken key board. Imagine typing with an on screen keyboard (not a touchscreen). I’m working on the abstract and should be done by the end of the day. The manuscript is taking longer than I would like. It will likely be Friday before I get it done.
I got the updates back and am working on those for the LPSC abstract. I finished the updates on my manuscript (a little later than I had hoped). Luckily, it was also not as bad as I was expecting (I just had less free time than I had hoped). I have this week to do the revision on the LPSC abstract. I can do that.
This has been a busy break. I’ve barely done any reading let alone blogging about my reading, so I’m ready to get these edits done so I can finally do a bit of that 😊. Even these updates, I’m making them in the new year based on memory because I just haven’t had time for it. Luckily, things are beginning to lighten up. It’s a new decade and a new year. I’m excited. Its a big year (comps) of my PhD and hopefully of reading. I’ve got a reading goal of a 100 books, and that’s fairly conservative considering the pace I’ve been reading at. Be sure to check out my end of year stats post for the books I read last year (still in progress)!
This is an ongoing post of research updates during the month. Updates are provided every few days, and you can easily reach the update by clicking the link in the calendar.
11/4/19 – Another Month
I’ve made a lot of progress in regards to grading of the midterm in Earth Rocks. I spent a good deal of time over the weekend to make sure I was finished today. I have another 8 to grade (maybe a few more after this), but the bulk of it is done. Today, I’m working on creating a code to visualize the results the 2D model is giving. I need to compare the results I am getting for different inputs as I finalize the conditions for HCN. I’m struggling because I don’t know how to use the result data file, .pkl. I think I will reach out to someone who knows Python because I fear there isn’t a simple solution.
I hope to finish this tomorrow if not today. I am in the meantime trying to run a few codes for the melt ponds at 10s of meters at a finer resolution to see if we can have slightly higher resolution for instances of drainage. Right now, I am running at 0.01 m starting depth and at 0.1 cm increments. It seems to be working for ppts at 100, 500, 750, and 1000 at 1 second time steps. That is very slow, but all I’m looking for is low depth results (~10m).
I got the email for my revisions today. They shouldn’t be too drastic, but I only have a month. I noticed when trying to resubmit a revised paper, the Cassini Special Issue is no longer an option. I can only assume that I am too late for that. I didn’t realize I’d be penalized for the review process taking the time it took. I suppose it doesn’t really matter in which edition it gets published, but it is disheartening nonetheless. It would have been nice to see my work in the final review of Cassini work.
This has not been a great week. It’s so easy to keep pushing off discussing my progress until I feel like I have something substantial to say, but I don’t think that’s productive. I finished grading midterms, but that didn’t take all week. I helped Gavin and Carol with a couple things. Of course, that only took a few hours at best. I reviewed my feedback from the reviewers on my paper, and I spent a bit of time checking and changing the planetary ice MATLAB code. I got some aid from Chase on how to use the results the 2D heat transfer model, but I’ve yet to do anything with it. I can talk about little things I did, but the crux of it is I could have done better.
It was a week of distractions and procrastination. My goal is to shame myself into avoiding letting this happen again by talking about it here. I will say, I’ve gotten better at staying off Facebook. That was a serious problem for a while, but I’ve made a point to simply avoid the most distracting (online games) aspects while working by avoiding it outside of work too. That doesn’t mean there aren’t other distractions too. One thing I’ll try doing moving forward with this blog is start by setting up goals before each day to help me focus.
Goals: Begin reviewing the notes Chase sent me. I need to read through it and set up a template file or framework of troubleshooting. I don’t have to get it working, but I need to at least have something that should be outputting/visualizing results. Lastly, I will spend 2 hours working on my manuscript edits.
Results: Success! Or at least partial success. I still have to create a code to plot the results, but I figured out how to load and save the ‘.pkl’ results as a ‘.mat’ file. Chase provided me with a fantastic walk through of how to deal with the results. I haven’t gone through the entire example he provided; it loads and plots the results in Python. Once I figured out how to load the data, I was able to Google how to convert it a ‘.mat’ file.
Note for self: this is saved as a python code called ‘trouble.py’
I was mistaken when I read that the paper was due in early December. I think that was when they wanted me to decide on if I wanted to resubmit it. It is due January 3rd now, but I still want to try and deal with it sooner rather than later. I started the edits. My “2-hour” window was a good motivator, but I did get distracted there a few times. Overall, I still think it was a successful approach. I’ve begun by addressing individual comments based on those that seem easiest to address. These are minor changes, and even those that are more significant have room for some pushback.
One said change is a request for a traditional crater size-frequency distribution. I don’t hate the idea of this, but I dread the amount of work it will take because I need to learn how these are formed. I’ve attached an example here. I assume the cumulative frequency is the crater count and the area then is either the area of a crater of that size, the total area covered given the number of craters that size, or the area of the region (planet) being studied.
Morota et al. (2011) from Earth Planets and Space
Other then the work I had planned, I met with the Space Grad Council.
Goals: With the data uploaded to MATLAB, the next step with dealing with the 2D heat transfer model results will be using the data in MATLAB. My goal is to finish reviewing the example Chase has provided me with; I expect it to be a fairly quick process since I’ll be doing in MATLAB. This should be done at the latest by the end of Wednesday. On Tuesday and Thursday, I will spend at least 2 hours working on the proposal (each day). I will spend at least 2 hours (total) editing the manuscript over the next two days. I’ve also got lab and will spend a bit of time preparing for that.
Results: I figured out how to export the results into a MATLAB compatible ‘.mat’ file, and I easily made a few graphs from it. That leads me to the final step of finalizing the chemistry parameters for Titan now that I have the size and Temperatures working and the results plotted (I’ll work on sharing an example here). Unfortunately, writing was not so successful. I spent a maybe half an hour working on my proposal, not enough, and I didn’t get around to working on the edits. Granted, I had lab Tuesday afternoon and again Wednesday afternoon, but I could have done better.
With lab, I have to change focus to grading for a few days. That’s the goal until its finished. I feel confident I can finish these by Tuesday.
Goals: My goal is to be done with these by Tuesday. I need to load the Wednesday labs (or some of them) and grade my part of the three Thursday sections. I also realized I still need to catch up on some of the TEPs seminar’s I’ve missed. My goal is to watch them (there are only a few I think) while I grade because it the labs are easy enough to grade without requiring too much thought.
Result: Grading has gone well! I have loaded all the Wednesday sections (that I have), and I’ve graded 2 out of the three Thursday sections. The 3rd one is the smallest of the three, so I feel confident that I will get through it tomorrow (probably with time to spare).
Results: I finished all the grading on Tuesday as I hoped I would. I did not get the TEPS videos yet. I really just need to have the play while I work. It will be the quickest way possible. I didn’t set any hard goals for myself today. However, I spent time working with the 2D code to figure out the final inputs to make. I need a clear plan moving forward.
Goal: I don’t have a hard goal set for the TEP; it still isn’t a priority. I’m at the point where I need to 1) input the 1D concentration model results into the 2D model. This means use the data I have and fit it to the concentration fit curves that Jacob et al. 2018 outlined. Then 2) figure out how to adjust the lens shape to be a cylinder. I need 1) done by the end of the day Friday, and I want to contact Chase about 2) tomorrow; that shouldn’t be a massive change.
This is important because I want to have a 2D model result in my proposal and for my December 5th meeting (at 2PM) with my committee. Which, I don’t know if I mentioned I finalized that meeting as well. Of course, I don’t want to leave my proposal writing unattended, but rather than set a time limit, I’m going to make it a content one. I need each section outlined to have a rough outline of the content I will discuss there beyond the titles I have created, including tables and figures where applicable. Again, this is by the EOB on Friday. This is a clear goal that can be met regardless of if I get distracted.
Results: I’ve condensed all of my concentration data into a file, but I still need to trim the anomalous data and fit it to the curve. This goal was a disaster and a major let down. I did not make progress on the proposal. I got distracted by having to collect and organize the Astrobiology documents for the new Astro professor. At least that is pretty much done. Then Thursday, I lost a big chunk of time helping someone with a MATLAB problem.
Goals: I am adjusting these goals. I will have these fits finished by EOB on Tuesday. Wednesday, I will try and produce results using these fits. Thursday and Friday will be proposal writing. I am also going to find times to watch these seminars. I need to think about the Manuscript as well. I will reassess my progress on Tuesday and decide where to go from there.
Results: It is taking a lot more time than I would like to fit this data. I have the fit ready, but the filtering takes time. I wasn’t prepared for it (with a code ready). If you recall, the model is freezing 100s of meters of water into ice, and it is doing it on a centimeter scale. This takes a lot of time. To speed it up, I run the model at 10 m segments throughout the water depth. The trick is, it takes time for the model to “calibrate”. Essentially, we can see the concentration changing drastically as it levels into the actual concentration. At deeper depths, where the thermal gradient barely changes, this equates to a sharp increase then a leveling off that we would expect at these low depths.
I finished the fit, but now I am faced with a new problem. The fits don’t fit my data appropriately. These fits are the constitutive equation Buffo et al (2019) uses to show the model output is following what we would expect. We are getting higher concentrations than expected, but I think a big part of this is needing more data. The higher concentrations have been difficult to run, and I now recognize where the gaps need to be filled. I am working on running those, but in the mean time, I going to use the data I have to run the code to run the 2D heat transfer model. This process of trimming the data was tedious, but the code is now there to do use with ease in the future.
In other news, I successfully watched all the TEPS seminars I missed, and emailed them to confirm I had done it. Then I spent a big chunk of time finalizing my expense report for the cash advance I got over the summer. I don’t know why, but these reports are some of the most stressful things about grad school. I’m not usually a very anxious person, but this is an area where it happens. The result, I procrastinate it as long as possible. Even now, there are tedious forms and revisions needed; these are the very things I dreaded.
Goals: My committee meeting is fast approaching. I am going to begin working on my presentation for that and use my proposal as a framework to go by (and vice versa). I need to finish the expense report updates and go to research forum. Then I will focus on the python code. I need a result. That means plug in these model parameters, and then change the shape of the lens. The shape may be postponed if it proves too difficult. I have to look at my manuscript revisions next week too; I can’t keep pushing that off. I think I will try and fit work in Saturday or Sunday, but I have a lot to do at home which may prevent me. We’re in the endgame now.
11/29/19 Updating 2D heat transfer model and fixing expense report
Results: I mad a few updates to the expense report, and it should be good to go now. I logged in the concentration data (as it stands) into Python. These are just constants that are found in the constitutive equations Buffo et al. (2019) discusses) because our results should be following those very equations. As I said, they aren’t, at least not entirely.
Some equations fit for some of the concentrations, and like I said, I am working on getting more data where necessary to improve these results. The other constants needing to be changed are those used to define the eutectic (melting temperature of water by HCN concentration). The model assumed a 2nd order polynomial would work, but I upped it to 9th order for a more precise fit. Here is a figure showing those results; I won’t (and haven’t) posted many figures of these results because it isn’t my code. Therefore, I am trying to limit the amount of results I show.
The eutectic values (from Coates and Hartshorne) are in black x’s while the 9th order equation is shown with red dashed line and the 2nd order equation is shown with blue line.
Then, I realized the shape was already defined as an option in the code (thanks Chase!). I’m letting it run for a 80 km crater over 200 m depth, but with a grid size of 10 m along the depth and 100 m along the radius of the crater. I want to shrink these values, but I need to run the code on a faster computer to do that. I’m happy with this progress, even if it took longer than I’d have liked. Until Monday, I may just let it go, let it go, and watch Frozen.
For the Love of Science 